Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 116 of 204
Found at i:35329826 original size:46 final size:46
Alignment explanation
Indices: 35329726--35329827 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
35329716 CATACAAAAT
* ** * **
35329726 TACAAAATTACAATATTCATATAAAATTACAATATTACAATATTCA
1 TACAAAATTACAATATTCATACAAAATTACAATACCAAAATATAAA
*
35329772 TACCAAATTACAATATTCATACAAAA-TACTAAT-CCAAAACTATAAA
1 TACAAAATTACAATATTCATACAAAATTAC-AATACCAAAA-TATAAA
35329818 TACAAAATTA
1 TACAAAATTA
35329828 ATTATAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
45 6 0.13
46 40 0.87
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (46 bp):
TACAAAATTACAATATTCATACAAAATTACAATACCAAAATATAAA
Found at i:35329850 original size:61 final size:61
Alignment explanation
Indices: 35329777--35330141 Score: 316
Period size: 61 Copynumber: 5.4 Consensus size: 61
35329767 ATTCATACCA
*
35329777 AATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
35329838 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
* * **
35329899 AATTACACTATTCATACAAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAA
1 AATTACAATATTCATACAAAA-TAC--TA---AT-CAAAA-ACT-AT---A-AATACAAA-A-TT
35329964 AATTAATTATAAAAT
51 AA----TTATAAAAT
*
35329979 AATTACAATATTCATACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAA
1 AATTACAATATTCATACAAAA-TAC--TA---AT-CAAAA-ACT-AT-AAATAC-A-AAAT----
*
35330044 AATTAATTATAAAAT
50 TA---ATTATAAAAT
*
35330059 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATATAAAATTAATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
35330120 AATTACAATATTCATACAAAAT
1 AATTACAATATTCATACAAAAT
35330142 TATAATATTC
Statistics
Matches: 263, Mismatches: 13, Indels: 56
0.79 0.04 0.17
Matches are distributed among these distances:
61 112 0.43
62 3 0.01
64 3 0.01
67 2 0.01
68 9 0.03
69 4 0.02
70 6 0.02
71 2 0.01
72 3 0.01
73 6 0.02
74 9 0.03
75 1 0.00
76 2 0.01
77 5 0.02
78 3 0.01
79 5 0.02
80 85 0.32
81 2 0.01
84 1 0.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (61 bp):
AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
Found at i:35329855 original size:34 final size:33
Alignment explanation
Indices: 35329817--35330143 Score: 107
Period size: 34 Copynumber: 10.3 Consensus size: 33
35329807 AAAACTATAA
35329817 ATACAAAATTAATTATAAAATAATTACAATATTC
1 ATACAAAATTAATTATAAAATAATTAC-ATATTC
* * * **
35329851 ATACAAAA-TACTAAT-CAA-AA--AC-TATAA
1 ATACAAAATTAATTATAAAATAATTACATATTC
35329878 ATACAAAATTAATTATAAAATAATTACACTATTC
1 ATACAAAATTAATTATAAAATAATTACA-TATTC
* *
35329912 ATACAAAATTACAATATTCATACAA-AA-TAC-TAATC
1 ATACAAAATT---A-ATT-ATAAAATAATTACATATTC
* * * * * *
35329947 A-A-AAAATATAAATACAAAATTAATTATAAAATA
1 ATACAAAAT-TAATTATAAAA-TAATTACATATTC
*
35329980 ATTAC--AA-T-ATTCATACAA-AATTACAATATTC
1 A-TACAAAATTAATT-ATAAAATAATTAC-ATATTC
* * * **
35330011 ATACAAAA-TACTAAT-CAA-AA--AC-TATAA
1 ATACAAAATTAATTATAAAATAATTACATATTC
35330038 ATACAAAATTAATTATAAAATAATTACAATATTC
1 ATACAAAATTAATTATAAAATAATTAC-ATATTC
* * * **
35330072 ATACAAAA-TACTAAT-CAA-AA--AC-TATAA
1 ATACAAAATTAATTATAAAATAATTACATATTC
*
35330099 ATATAAAATTAATTATAAAATAATTACAATATTC
1 ATACAAAATTAATTATAAAATAATTAC-ATATTC
35330133 ATACAAAATTA
1 ATACAAAATTA
35330144 TAATATTCAT
Statistics
Matches: 208, Mismatches: 46, Indels: 78
0.63 0.14 0.23
Matches are distributed among these distances:
27 32 0.15
28 15 0.07
29 16 0.08
30 16 0.08
31 18 0.09
32 22 0.11
33 20 0.10
34 49 0.24
35 6 0.03
37 4 0.02
38 5 0.02
39 5 0.02
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (33 bp):
ATACAAAATTAATTATAAAATAATTACATATTC
Found at i:35329899 original size:80 final size:78
Alignment explanation
Indices: 35329838--35330080 Score: 414
Period size: 80 Copynumber: 3.0 Consensus size: 78
35329828 ATTATAAAAT
35329838 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA-T
*
35329903 ACACTATTCATACAA
65 A-AATATTCATACAA
*
35329918 AATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAATAATT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA-T
35329983 ACAATATTCATACAA
65 A-AATATTCATACAA
35329998 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA-T
35330063 ACAATATTCATACAA
65 A-AATATTCATACAA
35330078 AAT
1 AAT
35330081 ACTAATCAAA
Statistics
Matches: 160, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 160 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (78 bp):
AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATA
AATATTCATACAA
Found at i:35330120 original size:80 final size:78
Alignment explanation
Indices: 35329867--35330106 Score: 285
Period size: 80 Copynumber: 3.1 Consensus size: 78
35329857 AATACTAATC
* * *
35329867 AAAAACTATAAATACAAAATTAATTATAAAATAATTACACTATTCATACAAAATTACAATATTCA
1 AAAAAATATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTAC--TAATCA
* *
35329932 TACAAAATACT-AAT-C
64 TA-AAACTA-TAAATAT
*
35329947 AAAAAATATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTACAATATTCA
1 AAAAAATATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTAC--TAATCA
* *
35330012 TACAAAATACT-AAT-C
64 TA-AAACTA-TAAATAT
*
35330027 AAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAA-TACTAATCA-A
1 AAAAAATATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTACTAATCATA
35330090 AAACTATAAATAT
66 AAACTATAAATAT
35330103 AAAA
1 AAAA
35330107 TTAATTATAA
Statistics
Matches: 152, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
74 1 0.01
75 8 0.05
76 5 0.03
77 5 0.03
79 3 0.02
80 130 0.86
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (78 bp):
AAAAAATATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTACTAATCATA
AAACTATAAATAT
Found at i:35330148 original size:19 final size:19
Alignment explanation
Indices: 35330120--35330213 Score: 76
Period size: 19 Copynumber: 5.3 Consensus size: 19
35330110 ATTATAAAAT
35330120 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
35330139 AATTATAATATTCATATAA
1 AATTACAATATTCATACAA
* *
35330158 AATTACAAAATT-ACACAA
1 AATTACAATATTCATACAA
*
35330176 TATT-C-ATA--CA-A-AA
1 AATTACAATATTCATACAA
* *
35330189 AGTTACAATATACATACAA
1 AATTACAATATTCATACAA
35330208 AATTAC
1 AATTAC
35330214 CCATTGGCGC
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
13 4 0.07
14 2 0.04
15 4 0.07
16 2 0.04
17 3 0.05
18 8 0.14
19 34 0.60
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:35330169 original size:27 final size:28
Alignment explanation
Indices: 35330134--35330188 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
35330124 ACAATATTCA
* *
35330134 TACAAAATT-ATAATATTCATATAAAAT
1 TACAAAATTAACAATATTCATACAAAAT
35330161 TACAAAATTACACAATATTCATACAAAA
1 TACAAAATTA-ACAATATTCATACAAAA
35330189 AGTTACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.38
29 15 0.62
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (28 bp):
TACAAAATTAACAATATTCATACAAAAT
Found at i:35330185 original size:21 final size:21
Alignment explanation
Indices: 35330161--35330213 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
35330151 CATATAAAAT
*
35330161 TACAAAATTACACAATATTCA
1 TACAAAATTACACAATATACA
35330182 TACAAAAAGTT--ACAATATACA
1 TAC-AAAA-TTACACAATATACA
35330203 TACAAAATTAC
1 TACAAAATTAC
35330214 CCATTGGCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
19 2 0.07
20 4 0.15
21 15 0.56
22 4 0.15
23 2 0.07
ACGTcount: A:0.55, C:0.17, G:0.02, T:0.26
Consensus pattern (21 bp):
TACAAAATTACACAATATACA
Found at i:35330207 original size:141 final size:138
Alignment explanation
Indices: 35329778--35330207 Score: 486
Period size: 141 Copynumber: 3.1 Consensus size: 138
35329768 TTCATACCAA
*
35329778 ATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAATAATTA
1 ATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTA
* * *
35329843 CAATATTCATACAAAA-TACT-A-A-TCA-AAAACTATAAA-TACAAAATTAATTATA-AAATAA
66 CAATATTCATACAAAATTA-TAATATTCATAAAAATACAAATTACAAAACT-ATTATACAAA-AA
35329901 TTACACTATTCATAC
128 TTACA--A-T-ATAC
*
35329916 AAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAATAA
1 ---ATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA
* * * *
35329981 TTACAATATTCATACAAAATTACAATATTCATACAAAATACTAATCA-AAAACTATAAATACAAA
63 TTACAATATTCATACAAAATTATAATATTCATA-AAAATACAAATTACAAAACTAT-TATAC-AA
* *
35330045 ATTAATTATAAAATA-
125 A--AATTACAATATAC
*
35330060 ATTACAATATTCATACAAAATACTAATCAAAAACTATAAATATAAAATTAATTATAAAATAATTA
1 ATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTA
*
35330125 CAATATTCATACAAAATTATAATATTCATATAAAATTACAAAATTACACAA-TATTCATACAAAA
66 CAATATTCATACAAAATTATAATATTCATA-AAAA-TAC-AAATTACAAAACTATT-ATACAAAA
35330189 AGTTACAATATAC
127 A-TTACAATATAC
35330202 A-TACAA
1 ATTACAA
35330208 AATTACCCAT
Statistics
Matches: 251, Mismatches: 21, Indels: 34
0.82 0.07 0.11
Matches are distributed among these distances:
140 2 0.01
141 188 0.75
142 10 0.04
143 12 0.05
144 6 0.02
145 6 0.02
146 15 0.06
147 2 0.01
148 3 0.01
149 7 0.03
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (138 bp):
ATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTA
CAATATTCATACAAAATTATAATATTCATAAAAATACAAATTACAAAACTATTATACAAAAATTA
CAATATAC
Found at i:35333668 original size:23 final size:21
Alignment explanation
Indices: 35333608--35333680 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 21
35333598 GGGCACCTGG
**
35333608 GTGGCATTCTGCATGGCTTTT
1 GTGGCATTCTATATGGCTTTT
*
35333629 GTAGCGCATTCTGTATGGCTTTT
1 GT-G-GCATTCTATATGGCTTTT
*
35333652 GTGGCATAATCTATATGGCCTTT
1 GTGGCAT--TCTATATGGCTTTT
35333675 GTGGCA
1 GTGGCA
35333681 CATTCTGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.13
22 2 0.04
23 37 0.82
ACGTcount: A:0.15, C:0.18, G:0.27, T:0.40
Consensus pattern (21 bp):
GTGGCATTCTATATGGCTTTT
Found at i:35333676 original size:46 final size:45
Alignment explanation
Indices: 35333620--35333723 Score: 120
Period size: 46 Copynumber: 2.3 Consensus size: 45
35333610 GGCATTCTGC
* * * *
35333620 ATGGCTTTTGTAGCGCATTCTGTATGGCTTTTGTGGCATAATCTAT-
1 ATGGCCTTTGTAGCACATTCTGTATAGCCTTTGTGGC-TAAT-TATG
* *
35333666 ATGGCCTTTGTGGCACATTCTGTTTAGCCTTTGTGGCTAATTATG
1 ATGGCCTTTGTAGCACATTCTGTATAGCCTTTGTGGCTAATTATG
*
35333711 TTGGCCTTTGTAG
1 ATGGCCTTTGTAG
35333724 AGTACTTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 3 0.06
45 15 0.31
46 31 0.63
ACGTcount: A:0.15, C:0.16, G:0.25, T:0.43
Consensus pattern (45 bp):
ATGGCCTTTGTAGCACATTCTGTATAGCCTTTGTGGCTAATTATG
Found at i:35333720 original size:22 final size:22
Alignment explanation
Indices: 35333644--35333721 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
35333634 GCATTCTGTA
* *
35333644 TGGCTTTTGTGGCATAATCTAT-A
1 TGGCCTTTGTGGC-TAAT-TATGT
*
35333667 TGGCCTTTGTGGC-ACATTCTGTT
1 TGGCCTTTGTGGCTA-ATTATG-T
*
35333690 TAGCCTTTGTGGCTAATTATGT
1 TGGCCTTTGTGGCTAATTATGT
35333712 TGGCCTTTGT
1 TGGCCTTTGT
35333722 AGAGTACTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 3 0.07
22 12 0.27
23 29 0.64
24 1 0.02
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.45
Consensus pattern (22 bp):
TGGCCTTTGTGGCTAATTATGT
Found at i:35342915 original size:57 final size:57
Alignment explanation
Indices: 35342815--35342990 Score: 228
Period size: 57 Copynumber: 3.1 Consensus size: 57
35342805 ATAGAAATGG
* * *
35342815 TGAAAATTGAGAAATAGGGAATCATTTGGAAATTATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAAT--GGAATCATTTGGAAATGATTAGGGTTTTCTCCAAAATGAAAA
* * * *
35342874 TGAAAATGGAGAAATGGAAACATTTGGAAATGATTAGGGTTTTGTCCAAAATGATAA
1 TGAAAATAGAGAAATGGAATCATTTGGAAATGATTAGGGTTTTCTCCAAAATGAAAA
* * *
35342931 TGAAAATAGAGAAATGGAATCATTTGAAAATGAAT-GTGGTTTTCTACAAAATGAAAA
1 TGAAAATAGAGAAATGGAATCATTTGGAAATGATTAG-GGTTTTCTCCAAAATGAAAA
35342988 TGA
1 TGA
35342991 CCTGAAAATT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
56 1 0.01
57 88 0.85
59 14 0.14
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.30
Consensus pattern (57 bp):
TGAAAATAGAGAAATGGAATCATTTGGAAATGATTAGGGTTTTCTCCAAAATGAAAA
Found at i:35357890 original size:25 final size:24
Alignment explanation
Indices: 35357860--35357950 Score: 62
Period size: 24 Copynumber: 3.8 Consensus size: 24
35357850 AATTTTGCTA
35357860 TAAATAAAATTTTAAAAAATAAATT
1 TAAATAAAATTTTAAAAAAT-AATT
* * *
35357885 TAAATATATTTTTATAAAATTTAA-T
1 TAAATAAAATTTTA-AAAA-ATAATT
* *
35357910 T-AATTAAATTATT-TAAAATAATT
1 TAAATAAAATT-TTAAAAAATAATT
* *
35357933 GAAATAAAAATTTAAAAA
1 TAAATAAAATTTTAAAAA
35357951 TTTTAACATA
Statistics
Matches: 48, Mismatches: 12, Indels: 13
0.66 0.16 0.18
Matches are distributed among these distances:
22 3 0.06
23 6 0.12
24 16 0.33
25 16 0.33
26 6 0.12
27 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
TAAATAAAATTTTAAAAAATAATT
Found at i:35359132 original size:66 final size:66
Alignment explanation
Indices: 35359042--35359171 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
35359032 CGTTTATTTA
*
35359042 TTTTATTTTTTAAATATTAATTAATGATATATGACGATTTCTTAGCTTCACCTATCAAATAATTA
1 TTTTATTTTTTAAATATCAATTAATGATATATGACGATTTCTTAGCTTCACCTATCAAATAATTA
35359107 T
66 T
* *
35359108 TTTTATTTTTTAAATATCAATTAATGATATATGACGATTTTTTAGCTTCACCTCTCAAATAATT
1 TTTTATTTTTTAAATATCAATTAATGATATATGACGATTTCTTAGCTTCACCTATCAAATAATT
35359172 GTCAACTTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (66 bp):
TTTTATTTTTTAAATATCAATTAATGATATATGACGATTTCTTAGCTTCACCTATCAAATAATTA
T
Found at i:35371198 original size:18 final size:17
Alignment explanation
Indices: 35371175--35371208 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
35371165 AAAGTATATG
35371175 TATGTACATATATAAAAA
1 TATGTACATATA-AAAAA
*
35371193 TATGTACGTATAAAAA
1 TATGTACATATAAAAA
35371209 CTAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (17 bp):
TATGTACATATAAAAAA
Found at i:35371198 original size:22 final size:23
Alignment explanation
Indices: 35371170--35371225 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
35371160 AAATAAAAGT
* * *
35371170 ATATGTATGTACATATA-TAAAA
1 ATATGTACGTACAAAAACTAAAA
*
35371192 ATATGTACGTATAAAAACTAAAA
1 ATATGTACGTACAAAAACTAAAA
35371215 ATATGTACGTA
1 ATATGTACGTA
35371226 TAAATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (23 bp):
ATATGTACGTACAAAAACTAAAA
Found at i:35371563 original size:3 final size:3
Alignment explanation
Indices: 35371545--35371630 Score: 136
Period size: 3 Copynumber: 28.3 Consensus size: 3
35371535 AATGATAGTC
* *
35371545 ATA ATA GTA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
35371593 ATA ATA ATA ATA ATA GTA ATA ATAA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A
35371631 CGCTAAAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
3 74 0.96
4 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35375748 original size:39 final size:40
Alignment explanation
Indices: 35375646--35375770 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
35375636 AAAATGGAGG
* * * *
35375646 TAAAAATCGAGCATTAGTGGCATTTTATGAAAATCGCCGC
1 TAAAAATCGAGCATTAGCGGCGTTTTTTGAAAAACGCCGC
*
35375686 TAAAGATCGAGCATTAGCGGCGTTTTTTGAAAAACGCCGC
1 TAAAAATCGAGCATTAGCGGCGTTTTTTGAAAAACGCCGC
* *
35375726 TAAAAAT-GAGCATTCGCGGCGTTTTTCGAAAAACGCCGC
1 TAAAAATCGAGCATTAGCGGCGTTTTTTGAAAAACGCCGC
35375765 TAAAAA
1 TAAAAA
35375771 CCTAAGCCCA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 36 0.47
40 41 0.53
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (40 bp):
TAAAAATCGAGCATTAGCGGCGTTTTTTGAAAAACGCCGC
Found at i:35375856 original size:41 final size:41
Alignment explanation
Indices: 35375799--35376069 Score: 382
Period size: 41 Copynumber: 6.6 Consensus size: 41
35375789 ACCTTTTGCA
35375799 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTT
* *
35375840 TTAGCAGCGTTTTTG-AAAAGACGCCGCTAATGCTTGGGGTT
1 TTAGCGGCGTTTTTGAAAAAG-CGCCGCTAATGCTCGGGGTT
*
35375881 TTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTT
* *
35375922 TTAGCGGCGTTTTTGAAAAAGTGCCACTAATGCTCGGGGTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTT
* * * * * * *
35375963 TTAACAGTGTTTTTGAAAAAGCGTCGCGAATGATCGGGTTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTT
* * * *
35376004 TTTGCGGAGTTTTTGAAAAAGCGCCGCTAATGCTCGAGGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTT
35376045 TTAGCGGCGTTTTTGAAAAAGCGCC
1 TTAGCGGCGTTTTTGAAAAAGCGCC
35376070 ACAAAAAACA
Statistics
Matches: 199, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 5 0.03
41 190 0.95
42 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTT
Found at i:35376752 original size:14 final size:15
Alignment explanation
Indices: 35376726--35376763 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
35376716 GTTTAGGGGG
35376726 TATGGATTTAGGGAC
1 TATGGATTTAGGGAC
*
35376741 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAC
35376755 TATGG-TTTA
1 TATGGATTTA
35376764 AGGGTTGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.03, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAGGGAC
Found at i:35376870 original size:284 final size:286
Alignment explanation
Indices: 35376353--35376883 Score: 682
Period size: 284 Copynumber: 1.8 Consensus size: 286
35376343 TATCACTATA
* * *
35376353 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAATATTTAAGGTCGATTTAGGAGTTACTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATAATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTA
* *
35376418 TTTTAAGGTTAATTTAGGGATCAATATGGATTTAGGGATTATGGTTTAAGGGTTGAGATTTAAGG
66 TTTTAAGG---ATTTAGGGA--AATATGGATTTAGGGACTATGGATTAAGGGTTGAGATTTAAGG
* * * * * *
35376483 TTTAAGGATTTATGGGTTAGACATTAGGGGTTTAGAGTTAGGGATTTAGGGTTTAGGGATTCAAG
126 GTTAAGGATTTATAGGTTAGACATTAGGGATTAAGAGTTAGGGATTTAGGGATTAGAGATTCAAG
* *
35376548 AGTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTT
191 AGTCGGGTTAGGCTTTTGGGTTTAGATTAACTAGTTTTTTGAATTTATATATTAAATATGTTCTT
35376613 ATATAATTGTAAAAGAGATAATAACAAATTT
256 ATATAATTGTAAAAGAGATAATAACAAATTT
* *
35376644 GTTTAGGGTTTTTTGTTTAGGGTATATAATTAATTTAAGATTTAGGGCC-AGTTTAGGAGTTACT
1 GTTTAGGGTTTTTGGTTTAGGGTATATAATTAATTTAAGATTTAAGGCCGA-TTTAGGAGTTACT
** *
35376708 ATTTTAAGG-TTTAGGG-GGTATGGATTTAGGGACTATGGATT-AGGGATT-ATGGTTTAAGGGT
65 ATTTTAAGGATTTAGGGAAATATGGATTTAGGGACTATGGATTAAGGG-TTGA-GATTTAAGGGT
* * * * * *
35376769 T-GGGGTTTA-AGGTTCAGGA-GTTAGGGAATTAAGAGTTATGGATTTAGGGATTAGAGATTTAG
128 TAAGGATTTATAGGTT-A-GACATTAGGG-ATTAAGAGTTAGGGATTTAGGGATTAGAGATTCAA
*
35376831 GGGTCGGGTTAGGCTTTTGGGTTTAGATTAACTAGTTTTTTGAATTTATATAT
190 GAGTCGGGTTAGGCTTTTGGGTTTAGATTAACTAGTTTTTTGAATTTATATAT
35376884 ATTAAATGAT
Statistics
Matches: 209, Mismatches: 25, Indels: 19
0.83 0.10 0.08
Matches are distributed among these distances:
282 4 0.02
283 18 0.09
284 113 0.54
287 7 0.03
290 1 0.00
291 66 0.32
ACGTcount: A:0.27, C:0.03, G:0.28, T:0.42
Consensus pattern (286 bp):
GTTTAGGGTTTTTGGTTTAGGGTATATAATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTA
TTTTAAGGATTTAGGGAAATATGGATTTAGGGACTATGGATTAAGGGTTGAGATTTAAGGGTTAA
GGATTTATAGGTTAGACATTAGGGATTAAGAGTTAGGGATTTAGGGATTAGAGATTCAAGAGTCG
GGTTAGGCTTTTGGGTTTAGATTAACTAGTTTTTTGAATTTATATATTAAATATGTTCTTATATA
ATTGTAAAAGAGATAATAACAAATTT
Found at i:35379489 original size:20 final size:21
Alignment explanation
Indices: 35379464--35379502 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35379454 TGAAGCAAAC
35379464 ATTTAGAA-TGAAAATGAGTT
1 ATTTAGAACTGAAAATGAGTT
*
35379484 ATTTAGAACTGAAATTGAG
1 ATTTAGAACTGAAAATGAG
35379503 AAGTTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (21 bp):
ATTTAGAACTGAAAATGAGTT
Found at i:35382567 original size:13 final size:13
Alignment explanation
Indices: 35382551--35382590 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
35382541 TATCAAAAGC
*
35382551 ACTTCTGAAAAAT
1 ACTTCTCAAAAAT
*
35382564 ACTTCTCAAAAGT
1 ACTTCTCAAAAAT
35382577 ACTTCTCAAAAAT
1 ACTTCTCAAAAAT
35382590 A
1 A
35382591 ATAAAGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (13 bp):
ACTTCTCAAAAAT
Found at i:35384208 original size:16 final size:17
Alignment explanation
Indices: 35384181--35384213 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35384171 TCTACATCAC
*
35384181 TAGTTGAAGAAACTAAA
1 TAGTTGAAGAAAATAAA
35384198 TAGTT-AAGAAAATAAA
1 TAGTTGAAGAAAATAAA
35384214 ACAGTAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.03, G:0.15, T:0.24
Consensus pattern (17 bp):
TAGTTGAAGAAAATAAA
Found at i:35386196 original size:16 final size:16
Alignment explanation
Indices: 35386175--35386205 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35386165 CACTTGTGAC
35386175 TTAATGTTTAATATAT
1 TTAATGTTTAATATAT
*
35386191 TTAATGTTTACTATA
1 TTAATGTTTAATATA
35386206 ATATATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (16 bp):
TTAATGTTTAATATAT
Found at i:35387521 original size:41 final size:40
Alignment explanation
Indices: 35387414--35387539 Score: 146
Period size: 41 Copynumber: 3.0 Consensus size: 40
35387404 TTTCATGACC
*
35387414 TTTAGCGGC-TTTTTGGTGAAAGTGCCGCTAAAGGTCATGTT
1 TTTAGCGGCGTTTTTGG-GAAAGCGCCGCTAAAGGTCATG-T
* * * *
35387455 CTTTAACGGCGTTTTTATGAAAAGCGTCGCTAAAGGTCATGT
1 -TTTAGCGGCGTTTTT-GGGAAAGCGCCGCTAAAGGTCATGT
*
35387497 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGT
1 TTTAGCGGCGTTTTTGGGA-AAGCGCCGCTAAAGGTCATGT
35387538 TT
1 TT
35387540 GTAACACCCC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.03
41 35 0.49
42 9 0.13
43 24 0.34
44 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.33
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCATGT
Found at i:35388744 original size:23 final size:23
Alignment explanation
Indices: 35388718--35388816 Score: 180
Period size: 23 Copynumber: 4.3 Consensus size: 23
35388708 ATAAGTGCCA
35388718 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
35388741 CACTGTTATGTGGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35388764 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35388787 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35388810 CACTGAT
1 CACTGAT
35388817 CAATAACACT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:35390136 original size:25 final size:25
Alignment explanation
Indices: 35390111--35390188 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 25
35390101 ATATAACGGA
35390111 AAGCTCATAAGAGCC-ATAATCAGG
1 AAGCTCATAAGAGCCAATAATCAGG
* *
35390135 AAGCTCATACGAGCCAATAATGA-G
1 AAGCTCATAAGAGCCAATAATCAGG
* * *
35390159 TAGCTC-TAAAGAGCCATTAA-CAGA
1 AAGCTCAT-AAGAGCCAATAATCAGG
35390183 AAGCTC
1 AAGCTC
35390189 CGGATAGCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
23 2 0.05
24 35 0.81
25 6 0.14
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (25 bp):
AAGCTCATAAGAGCCAATAATCAGG
Found at i:35390263 original size:25 final size:24
Alignment explanation
Indices: 35390194--35390286 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 24
35390184 AGCTCCGGAT
35390194 AGCCATATATC-GAGAAGTT-CAAGCG
1 AGCCAT-TATCAG-GAAGTTCCAAG-G
* *
35390219 AGCCA-TATCGGGAAGCTCCAAGG
1 AGCCATTATCAGGAAGTTCCAAGG
*
35390242 AGCCATTAATCAGGAAGTTCCAAAG
1 AGCCATT-ATCAGGAAGTTCCAAGG
*
35390267 AGCCATTGATCAGAAAGTTC
1 AGCCATT-ATCAGGAAGTTC
35390287 ACGAAGAGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
23 15 0.26
24 6 0.10
25 37 0.64
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (24 bp):
AGCCATTATCAGGAAGTTCCAAGG
Found at i:35390397 original size:24 final size:24
Alignment explanation
Indices: 35390370--35390436 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
35390360 GGGATGCTTT
35390370 GAAGAGCTATTAATGGGAAGCTCA
1 GAAGAGCTATTAATGGGAAGCTCA
*
35390394 GAAGAACCATATT-ATGGGAAGCTCA
1 GAAG-AGC-TATTAATGGGAAGCTCA
* *
35390419 AAAGGGCTATTAATGGGA
1 GAAGAGCTATTAATGGGA
35390437 CACTCTTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 4 0.11
24 11 0.31
25 17 0.47
26 4 0.11
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.21
Consensus pattern (24 bp):
GAAGAGCTATTAATGGGAAGCTCA
Found at i:35394040 original size:24 final size:24
Alignment explanation
Indices: 35393975--35394041 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
35393965 GATACAGACC
* * *
35393975 TTTCATTACTATCCTGTTCGACCT
1 TTTCATTAATATCCTTTTCGAACT
* *
35393999 TTTCATTGATATCTTTTTCGAACT
1 TTTCATTAATATCCTTTTCGAACT
35394023 TTTCATTAATATCCTTTTC
1 TTTCATTAATATCCTTTTC
35394042 AGATACATCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTCATTAATATCCTTTTCGAACT
Found at i:35394087 original size:40 final size:40
Alignment explanation
Indices: 35394013--35394146 Score: 209
Period size: 40 Copynumber: 3.4 Consensus size: 40
35394003 ATTGATATCT
* *
35394013 TTTTCGAA-CTTTTCA-TTAATATCCTTTTCAGATACATCT
1 TTTTC-AACCTTTTCATTTGATATCCTTTTCAGATACATCC
*
35394052 TTTTCAACCTTTTCATTTGATATCCTTTTCGGATACATCC
1 TTTTCAACCTTTTCATTTGATATCCTTTTCAGATACATCC
*
35394092 TTTTCAACCTTTTCATTTGATATCCTTTTCATATACATCC
1 TTTTCAACCTTTTCATTTGATATCCTTTTCAGATACATCC
35394132 TTTTCAACCTTTTCA
1 TTTTCAACCTTTTCA
35394147 CGGATTCGTA
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
38 2 0.02
39 12 0.14
40 74 0.84
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.49
Consensus pattern (40 bp):
TTTTCAACCTTTTCATTTGATATCCTTTTCAGATACATCC
Found at i:35394133 original size:15 final size:16
Alignment explanation
Indices: 35394099--35394137 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
35394089 TCCTTTTCAA
* *
35394099 CCTTTTCATTTGATAT
1 CCTTTTCATATGACAT
35394115 CCTTTTCATAT-ACAT
1 CCTTTTCATATGACAT
35394130 CCTTTTCA
1 CCTTTTCA
35394138 ACCTTTTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.21, C:0.26, G:0.03, T:0.51
Consensus pattern (16 bp):
CCTTTTCATATGACAT
Found at i:35394625 original size:27 final size:28
Alignment explanation
Indices: 35394587--35394640 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
35394577 CCCCAACTCG
35394587 TCTCATCAA-TTTTTTTTACTTTCCCTT
1 TCTCATCAATTTTTTTTTACTTTCCCTT
*
35394614 TCTCTTCAATTTTTTTTTACTTTCCCT
1 TCTCATCAATTTTTTTTTACTTTCCCT
35394641 CCCCTTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.61
Consensus pattern (28 bp):
TCTCATCAATTTTTTTTTACTTTCCCTT
Found at i:35398169 original size:25 final size:26
Alignment explanation
Indices: 35398135--35398194 Score: 113
Period size: 25 Copynumber: 2.3 Consensus size: 26
35398125 ATCATTGCTC
35398135 ACACGAGCTGTGAAATGGG-CTACTT
1 ACACGAGCTGTGAAATGGGCCTACTT
35398160 ACACGAGCTGTGAAATGGGCCTACTT
1 ACACGAGCTGTGAAATGGGCCTACTT
35398186 ACACGAGCT
1 ACACGAGCT
35398195 ATAGGTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (26 bp):
ACACGAGCTGTGAAATGGGCCTACTT
Found at i:35414184 original size:9 final size:9
Alignment explanation
Indices: 35414167--35414212 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
35414157 TGAGTTTTCG
35414167 AATTCGAAT
1 AATTCGAAT
*
35414176 AACTCGAAT
1 AATTCGAAT
35414185 AATTCGAAT
1 AATTCGAAT
35414194 AATTCGAAT
1 AATTCGAAT
35414203 AATTCGAAT
1 AATTCGAAT
35414212 A
1 A
35414213 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35414287 original size:29 final size:29
Alignment explanation
Indices: 35414255--35414314 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
35414245 ACTCTCAAAT
* *
35414255 CTTTTTACTTTTCCCTC-AAACTTTTACTC
1 CTTTCTAC-TTTCCCCCAAAACTTTTACTC
35414284 CTTTCTACTTTCCCCCAAAAACTTTTACTC
1 CTTTCTACTTTCCCCC-AAAACTTTTACTC
35414314 C
1 C
35414315 CCTACCCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 7 0.26
29 7 0.26
30 13 0.48
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (29 bp):
CTTTCTACTTTCCCCCAAAACTTTTACTC
Found at i:35415209 original size:18 final size:18
Alignment explanation
Indices: 35415186--35415228 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
35415176 AATTTATATC
35415186 AAAATCCT-TAAGTGATTT
1 AAAATCCTATAAG-GATTT
35415204 AAAATCCTATAAGGATTT
1 AAAATCCTATAAGGATTT
35415222 AAAATCC
1 AAAATCC
35415229 CAAAAGGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (18 bp):
AAAATCCTATAAGGATTT
Found at i:35415235 original size:18 final size:18
Alignment explanation
Indices: 35415199--35415237 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
35415189 ATCCTTAAGT
* *
35415199 GATTTAAAATCCTATAAG
1 GATTTAAAATCCCAAAAG
35415217 GATTTAAAATCCCAAAAG
1 GATTTAAAATCCCAAAAG
35415235 GAT
1 GAT
35415238 ATAGAGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (18 bp):
GATTTAAAATCCCAAAAG
Found at i:35417194 original size:19 final size:19
Alignment explanation
Indices: 35417172--35417209 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
35417162 GTAATTGAAC
35417172 TTGAAAATT-GGACTTGAGA
1 TTGAAAATTAGG-CTTGAGA
35417191 TTGAAAATTAGGCTTGAGA
1 TTGAAAATTAGGCTTGAGA
35417210 ACCCAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (19 bp):
TTGAAAATTAGGCTTGAGA
Found at i:35417634 original size:61 final size:58
Alignment explanation
Indices: 35417466--35417666 Score: 170
Period size: 68 Copynumber: 3.2 Consensus size: 58
35417456 TCCTAAAATA
* * * * * * *
35417466 ATATTATTTTAATAGATATAATATTAAATTTAGTTTAATACTTATCTTGATAGTATTTT
1 ATATTAATTTAATAGATTTAATATTAAATTAAGTCTAATATTTATCTTGATA-AATATT
* *
35417525 ATTAATTTAATATTAAAGCTATTATCTTAATATTAAATTAAGTTTAATATTTATCTTATAGATAA
1 A-T-A-TTAAT-TT-AA--TA-GAT-TTAATATTAAATTAAGTCTAATATTTATC-T-T-GATAA
35417590 ATATT
54 ATATT
* *
35417595 CTATTAATTTAATAGATTTAATATTAAAATTAA-TCTAATATTTATCTTGATAAGTATT
1 ATATTAATTTAATAGATTTAATATT-AAATTAAGTCTAATATTTATCTTGATAAATATT
35417653 ATATTAATTTAATA
1 ATATTAATTTAATA
35417667 TAAAAAGGTA
Statistics
Matches: 117, Mismatches: 12, Indels: 27
0.75 0.08 0.17
Matches are distributed among these distances:
58 22 0.19
59 2 0.02
60 2 0.02
61 21 0.18
62 13 0.11
63 4 0.03
64 2 0.02
65 2 0.02
66 4 0.03
67 7 0.06
68 27 0.23
69 2 0.02
70 5 0.04
71 4 0.03
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (58 bp):
ATATTAATTTAATAGATTTAATATTAAATTAAGTCTAATATTTATCTTGATAAATATT
Found at i:35452385 original size:22 final size:21
Alignment explanation
Indices: 35452342--35452388 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
35452332 AAATATTGCA
*
35452342 CCCTATAAAGAGGTATCACAC
1 CCCTATAAAGAGGTAACACAC
* *
35452363 CCCTAATAAAGAGTTAACGCAC
1 CCCT-ATAAAGAGGTAACACAC
35452385 CCCT
1 CCCT
35452389 CCCAGCTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.19
Consensus pattern (21 bp):
CCCTATAAAGAGGTAACACAC
Found at i:35454064 original size:34 final size:34
Alignment explanation
Indices: 35453974--35454066 Score: 143
Period size: 34 Copynumber: 2.7 Consensus size: 34
35453964 AATTTTTTTA
35453974 AAAATTAATTAAATT-AGGTTTTAGGGGTTTTAAG
1 AAAATTAATTAAATTAAGG-TTTAGGGGTTTTAAG
* * *
35454008 TAAATTAATTAAATTAAGGTTTAGTGTTTTTAAG
1 AAAATTAATTAAATTAAGGTTTAGGGGTTTTAAG
35454042 AAAATTAATTAAATTAAGGTTTAGG
1 AAAATTAATTAAATTAAGGTTTAGG
35454067 ATTTAAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
34 50 0.94
35 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (34 bp):
AAAATTAATTAAATTAAGGTTTAGGGGTTTTAAG
Found at i:35454397 original size:124 final size:124
Alignment explanation
Indices: 35454169--35454686 Score: 603
Period size: 124 Copynumber: 4.2 Consensus size: 124
35454159 TTTTGTTTTC
* * * *
35454169 TTTTCTACAGTAGTTTTTGAAAAATTAATTTTGAGAAGACGGTTTTGAAAAAATAGTGACAAAAA
1 TTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAGTGTC-AAAA
* * *
35454234 CGCATCAAGAGGATGCACTATTAGCAAAAGTATTGAAAAAAGCTCCCACAT-GATGCTCT
65 CGCTTCAAGAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATGCTCT
* * *
35454293 TTTTCTACAGTAGTTTCTGAAAAGATACTTTTGAGAAGACGATTTTGAAAAAATAATGTC-AAAC
1 TTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAGTGTCAAAAC
* * * * * * *
35454357 GTTTCAAGTAGCATGCACTGTCAGCAAAAGTACTAAAAAAAGCTTCCACGTGGATGCTTT
66 GCTTCAAG-AGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATGCTCT
* * *
35454417 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTAAAAAA
1 TTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAGTGT-CAAAA
* * * * ** *
35454482 TGCTTCAAGCAGAATGCACTGTCAGGAAAAGTACT-AAAAAAGCTCGAACATAGACT-CTCT
65 CGCTTCAAG-AGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACATGGA-TGCTCT
* * * *
35454542 TTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGTGTCAAAAA
1 TTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAGTGTC-AAAA
** * * * * *
35454607 CGCTTCAAAGAGGATGCACTATCAGTGAAATTACTGAGAAAAGCTCCCACGTGGACGCTCC
65 CGCTTC-AAGAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATGCTCT
35454668 TTTTCTACAGTAGTTTCTG
1 TTTTCTACAGTAGTTTCTG
35454687 CTTGGCCTTA
Statistics
Matches: 331, Mismatches: 54, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
122 10 0.03
123 35 0.11
124 114 0.34
125 101 0.31
126 71 0.21
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (124 bp):
TTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAGTGTCAAAAC
GCTTCAAGAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACATGGATGCTCT
Found at i:35470661 original size:26 final size:23
Alignment explanation
Indices: 35470624--35470670 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
35470614 ATGTCCAAAT
35470624 TGAAATAGTTGATAATTGATTAAA
1 TGAAATAGTTGATAATT-ATTAAA
*
35470648 TGAAACTATGTTGATTATTATTA
1 TGAAA-TA-GTTGATAATTATTA
35470671 TTTTCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 6 0.30
26 9 0.45
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (23 bp):
TGAAATAGTTGATAATTATTAAA
Found at i:35470916 original size:21 final size:21
Alignment explanation
Indices: 35470891--35470935 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35470881 TTCAGCTTCC
* *
35470891 AGTGAGGGTTGTGGTTGCTCT
1 AGTGAAGGTTATGGTTGCTCT
*
35470912 AGTGAAGGTTATGGTTGTTCT
1 AGTGAAGGTTATGGTTGCTCT
35470933 AGT
1 AGT
35470936 TGTAGGTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.07, G:0.38, T:0.40
Consensus pattern (21 bp):
AGTGAAGGTTATGGTTGCTCT
Found at i:35472788 original size:24 final size:24
Alignment explanation
Indices: 35472741--35472798 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
35472731 ATTGTTATAA
35472741 AAAATTATA-AAATAAAAATTAATT
1 AAAATTATATAAATAAAAA-TAATT
35472765 AAAATTATATAAATGAAAAA-AATT
1 AAAATTATATAAAT-AAAAATAATT
* *
35472789 TAAATAATAT
1 AAAATTATAT
35472799 TCAAAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 21 0.70
25 4 0.13
26 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATTATATAAATAAAAATAATT
Found at i:35476205 original size:10 final size:10
Alignment explanation
Indices: 35476186--35476224 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
35476176 GGTAATAATA
*
35476186 ATTTCTTTTT
1 ATTTCATTTT
35476196 ATTTCATTTT
1 ATTTCATTTT
*
35476206 ATTTTATTTT
1 ATTTCATTTT
*
35476216 ATTTTATTT
1 ATTTCATTT
35476225 GGATAAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTCATTTT
Found at i:35476209 original size:5 final size:5
Alignment explanation
Indices: 35476192--35476224 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
35476182 AATAATTTCT
*
35476192 TTTTA TTTCA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
35476225 GGATAAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:35476507 original size:24 final size:23
Alignment explanation
Indices: 35476464--35476509 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
35476454 ATGAATCAAT
35476464 AATATTTCTTGAAACTTAAGAACA
1 AATATTTCTTGAAAC-TAAGAACA
35476488 AATATTTCGATTGAAA-TAAGAA
1 AATATTTC--TTGAAACTAAGAA
35476510 TATGGATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 14 0.70
26 6 0.30
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
AATATTTCTTGAAACTAAGAACA
Found at i:35488551 original size:41 final size:40
Alignment explanation
Indices: 35488436--35488563 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 40
35488426 TTCTTTGAAA
* *
35488436 TGCACATACGTGCCCCTGTTCGTACTTCGATACACCTGAAA-
1 TGCACATACGTGTCCCTGTTCGTACTTCG-TACCCCT-AAAT
35488477 TGCACAT--GTGTTCCCCTGTTCGTACTTCGGTACCCCTAAAT
1 TGCACATACGTG-T-CCCTGTTCGTACTTC-GTACCCCTAAAT
* *
35488518 TGCACATACGTGTCCCTGTTTGTACTTCAGTACCCCTGAAT
1 TGCACATACGTGTCCCTGTTCGTACTTC-GTACCCCTAAAT
*
35488559 AGCAC
1 TGCAC
35488564 CTATGTGCCC
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
39 3 0.04
40 3 0.04
41 64 0.85
42 2 0.03
43 3 0.04
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.30
Consensus pattern (40 bp):
TGCACATACGTGTCCCTGTTCGTACTTCGTACCCCTAAAT
Found at i:35489690 original size:21 final size:21
Alignment explanation
Indices: 35489660--35489700 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35489650 CCTCTGCAGT
*
35489660 TTAATTTTTCTAAAT-TTTTCC
1 TTAATGTTTC-AAATGTTTTCC
35489681 TTAATGTTTCAAATGTTTTC
1 TTAATGTTTCAAATGTTTTC
35489701 AATTTAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (21 bp):
TTAATGTTTCAAATGTTTTCC
Found at i:35494579 original size:13 final size:13
Alignment explanation
Indices: 35494561--35494626 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
35494551 AGTTCTTCAT
35494561 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
35494574 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* ** *
35494587 TACCGTGGAAAAG
1 TGCTTTTGAAAAG
*
35494600 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
35494613 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
35494626 T
1 T
35494627 TTGATTTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:35508422 original size:40 final size:40
Alignment explanation
Indices: 35508334--35508444 Score: 102
Period size: 40 Copynumber: 2.8 Consensus size: 40
35508324 GTTTGAACAA
* * * * * **
35508334 AAAACACCGGTAAAAATCGACCATTAGCGGCGCTTTCTCT
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCATTCTAG
*
35508374 AAAGCGCCGCTAAAAATTGAGCATTAGCGGCG-ATTCTAAG
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCATTCT-AG
*
35508414 AAAACGCCGCTAATAA-T-ATGCATTAGCGGCG
1 AAAACGCCGCTAAAAATTGA-GCATTAGCGGCG
35508445 TTTTTGGAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
38 1 0.02
39 17 0.29
40 41 0.69
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCATTCTAG
Found at i:35509222 original size:14 final size:14
Alignment explanation
Indices: 35509205--35509234 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35509195 GGGATGTCAA
35509205 GTTTAAGATTTATG
1 GTTTAAGATTTATG
*
35509219 GTTTAGGATTTATG
1 GTTTAAGATTTATG
35509233 GT
1 GT
35509235 ATATTGGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
GTTTAAGATTTATG
Found at i:35509303 original size:7 final size:7
Alignment explanation
Indices: 35509277--35509374 Score: 70
Period size: 7 Copynumber: 13.9 Consensus size: 7
35509267 TGGTGTTTGT
35509277 GGTTTACG
1 GGTTTA-G
*
35509285 GGTTTAA
1 GGTTTAG
* *
35509292 TGTTTAT
1 GGTTTAG
35509299 GGTTTAG
1 GGTTTAG
35509306 GGTTTAG
1 GGTTTAG
35509313 GGTTTAG
1 GGTTTAG
*
35509320 GGTTTAC
1 GGTTTAG
** *
35509327 AATTTAT
1 GGTTTAG
* *
35509334 GATTTAC
1 GGTTTAG
* *
35509341 AGTTTAC
1 GGTTTAG
35509348 GGTTTAG
1 GGTTTAG
*
35509355 TGTTTAG
1 GGTTTAG
35509362 GGTTTAG
1 GGTTTAG
*
35509369 GATTTA
1 GGTTTA
35509375 ATTTAAGATT
Statistics
Matches: 72, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
7 66 0.92
8 6 0.08
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (7 bp):
GGTTTAG
Found at i:35510954 original size:14 final size:14
Alignment explanation
Indices: 35510937--35510972 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
35510927 GTAGTGTTGA
35510937 GTTATTC-AGATTTT
1 GTTATTCGA-ATTTT
35510951 GTTATTCGAATTTT
1 GTTATTCGAATTTT
35510965 GTTATTCG
1 GTTATTCG
35510973 GGTTTCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.19, C:0.08, G:0.17, T:0.56
Consensus pattern (14 bp):
GTTATTCGAATTTT
Found at i:35512093 original size:5 final size:5
Alignment explanation
Indices: 35512083--35512107 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35512073 GTCTTTATCT
35512083 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
35512108 ATAACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:35512178 original size:9 final size:9
Alignment explanation
Indices: 35512155--35512289 Score: 66
Period size: 9 Copynumber: 14.7 Consensus size: 9
35512145 TAAGACAGTA
35512155 AATTT-CAT
1 AATTTACAT
*
35512163 AACTTACAT
1 AATTTACAT
35512172 AATTTACAT
1 AATTTACAT
*
35512181 AACTTACAT
1 AATTTACAT
*
35512190 AATAACGTACAT
1 AAT---TTACAT
*
35512202 AATTTAAAGAT
1 AATTT--ACAT
*
35512213 CAA-ATATCAT
1 -AATTTA-CAT
*
35512223 AACTTACAT
1 AATTTACAT
*
35512232 -TTCTTACAT
1 AAT-TTACAT
*
35512241 AACTTACAT
1 AATTTACAT
35512250 AATTTACAT
1 AATTTACAT
*
35512259 AACTTACAT
1 AATTTACAT
35512268 AA--TACAT
1 AATTTACAT
35512275 CAA-TTACAT
1 -AATTTACAT
35512284 AATTTA
1 AATTTA
35512290 AAGAGAAAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 27
0.69 0.11 0.19
Matches are distributed among these distances:
7 5 0.05
8 8 0.08
9 66 0.68
10 4 0.04
11 4 0.04
12 10 0.10
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (9 bp):
AATTTACAT
Found at i:35512314 original size:46 final size:46
Alignment explanation
Indices: 35512250--35512523 Score: 231
Period size: 46 Copynumber: 6.2 Consensus size: 46
35512240 TAACTTACAT
**
35512250 AATTTACATAACTTACATAATACATCAATTACATAATTTAAAGAGAA
1 AATTT-CATAACTTACATAATACATCAATTACATAATTTAAAGATCA
* * *
35512297 AATTTCATAACTTACATAATACAT-AACGTATATAAGTTAAAGATCA
1 AATTTCATAACTTACATAATACATCAA-TTACATAATTTAAAGATCA
* * * *
35512343 AATATCATAACTTACATAAT--TTGC-ATAAC-TTA-TTAAAGATCA
1 AATTTCATAACTTACATAATACAT-CAATTACATAATTTAAAGATCA
* ** * *
35512385 AATATCATGTTCTTACAT--T---TC--TTACATAACTT--ACAT-A
1 AATTTCAT-AACTTACATAATACATCAATTACATAATTTAAAGATCA
* * *
35512422 ATTTACATAACTTACATAATACATCAATTACATAATATAAAGATCA
1 AATTTCATAACTTACATAATACATCAATTACATAATTTAAAGATCA
35512468 AATTTCATAACTTACATAATACAT-AACTTACATAATTTAAAGATCA
1 AATTTCATAACTTACATAATACATCAA-TTACATAATTTAAAGATCA
35512514 AATTTCATAA
1 AATTTCATAA
35512524 TAAACAACTT
Statistics
Matches: 183, Mismatches: 27, Indels: 35
0.75 0.11 0.14
Matches are distributed among these distances:
36 7 0.04
37 6 0.03
38 7 0.04
39 3 0.02
40 3 0.02
41 3 0.02
42 18 0.10
43 18 0.10
44 2 0.01
45 8 0.04
46 103 0.56
47 5 0.03
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.35
Consensus pattern (46 bp):
AATTTCATAACTTACATAATACATCAATTACATAATTTAAAGATCA
Found at i:35512417 original size:9 final size:9
Alignment explanation
Indices: 35512405--35512564 Score: 79
Period size: 9 Copynumber: 18.0 Consensus size: 9
35512395 TCTTACATTT
35512405 CTTACATAA
1 CTTACATAA
35512414 CTTACATAA
1 CTTACATAA
*
35512423 TTTACATAA
1 CTTACATAA
35512432 CTTACATAA
1 CTTACATAA
35512441 --TACATCAA
1 CTTACAT-AA
35512449 -TTACATAA
1 CTTACATAA
*
35512457 -TATAAAGATCAA
1 CT-T--ACAT-AA
* *
35512469 ATTTCATAA
1 CTTACATAA
35512478 CTTACATAA
1 CTTACATAA
35512487 --TACATAA
1 CTTACATAA
35512494 CTTACATAA
1 CTTACATAA
* *
35512503 TTTAAAGATCAA
1 CTT--ACAT-AA
* *
35512515 ATTTCATAA
1 CTTACATAA
* *
35512524 --TAAACAA
1 CTTACATAA
35512531 CTTACATAA
1 CTTACATAA
35512540 CTTACATAA
1 CTTACATAA
35512549 --TACATAA
1 CTTACATAA
*
35512556 GTTACATAA
1 CTTACATAA
35512565 TTTAAATATC
Statistics
Matches: 118, Mismatches: 17, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
7 23 0.19
8 5 0.04
9 72 0.61
10 4 0.03
11 6 0.05
12 7 0.06
13 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (9 bp):
CTTACATAA
Found at i:35512452 original size:16 final size:16
Alignment explanation
Indices: 35512407--35512503 Score: 94
Period size: 16 Copynumber: 6.1 Consensus size: 16
35512397 TTACATTTCT
35512407 TACATAACTTACATAA
1 TACATAACTTACATAA
35512423 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
35512441 TACATCAA-TTACATAA
1 TACAT-AACTTACATAA
* **
35512457 TATA-AAGAT-CA-AA
1 TACATAACTTACATAA
*
35512470 TTTCATAACTTACATAA
1 -TACATAACTTACATAA
35512487 TACATAACTTACATAA
1 TACATAACTTACATAA
35512503 T
1 T
35512504 TTAAAGATCA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.03
14 6 0.09
15 4 0.06
16 34 0.52
17 4 0.06
18 16 0.24
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:35512471 original size:21 final size:21
Alignment explanation
Indices: 35512447--35512525 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 21
35512437 ATAATACATC
35512447 AATTACATAATATAAAGATCA
1 AATTACATAATATAAAGATCA
*
35512468 AATTTCATAACT-TACATA-ATACA
1 AATTACATAA-TATA-A-AGAT-CA
*
35512491 TAACTTACATAATTTAAAGATCA
1 -AA-TTACATAATATAAAGATCA
*
35512514 AATTTCATAATA
1 AATTACATAATA
35512526 AACAACTTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
21 19 0.41
22 6 0.13
23 6 0.13
24 6 0.13
25 9 0.20
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.34
Consensus pattern (21 bp):
AATTACATAATATAAAGATCA
Found at i:35512473 original size:171 final size:170
Alignment explanation
Indices: 35512205--35512523 Score: 548
Period size: 171 Copynumber: 1.9 Consensus size: 170
35512195 CGTACATAAT
35512205 TTAAAGATCAAATATCATAACTTACATTTCTTACATAACTTACATAATTTACATAACTTACATAA
1 TTAAAGATCAAATATCATAACTTACATTTCTTACATAACTTACATAATTTACATAACTTACATAA
* *
35512270 TACATCAATTACATAATTTAAAGAGAAAATTTCATAACTTACATAATACATAACGTATATAAGTT
66 TACATCAATTACATAATATAAAGAGAAAATTTCATAACTTACATAATACATAACGTACATAAGTT
35512335 AAAGATCAAATATCATAACTTACATAATTTGCATAACTTA
131 AAAGATCAAATATCATAACTTACATAATTTGCATAACTTA
**
35512375 TTAAAGATCAAATATCATGTTCTTACATTTCTTACATAACTTACATAATTTACATAACTTACATA
1 TTAAAGATCAAATATCAT-AACTTACATTTCTTACATAACTTACATAATTTACATAACTTACATA
** * *
35512440 ATACATCAATTACATAATATAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATT
65 ATACATCAATTACATAATATAAAGAGAAAATTTCATAACTTACATAATACATAACGTACATAAGT
*
35512505 TAAAGATCAAATTTCATAA
130 TAAAGATCAAATATCATAA
35512524 TAAACAACTT
Statistics
Matches: 139, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
170 18 0.13
171 121 0.87
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.35
Consensus pattern (170 bp):
TTAAAGATCAAATATCATAACTTACATTTCTTACATAACTTACATAATTTACATAACTTACATAA
TACATCAATTACATAATATAAAGAGAAAATTTCATAACTTACATAATACATAACGTACATAAGTT
AAAGATCAAATATCATAACTTACATAATTTGCATAACTTA
Found at i:35512537 original size:46 final size:46
Alignment explanation
Indices: 35512421--35512550 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 46
35512411 TAACTTACAT
*
35512421 AATTTACATAACTTACATAATACATCAA-TTACATAATATAAAGATCA
1 AATTT-CATAACTAACATAATACAT-AACTTACATAATATAAAGATCA
* *
35512468 AATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCA
1 AATTTCATAACTAACATAATACATAACTTACATAATATAAAGATCA
*
35512514 AATTTCATAA-TAAACA-ACTTACATAACTTACATAATA
1 AATTTCATAACT-AACATA-ATACATAACTTACATAATA
35512551 CATAAGTTAC
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
45 4 0.05
46 67 0.88
47 5 0.07
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (46 bp):
AATTTCATAACTAACATAATACATAACTTACATAATATAAAGATCA
Found at i:35512552 original size:16 final size:16
Alignment explanation
Indices: 35512533--35512565 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35512523 ATAAACAACT
35512533 TACATAACTTACATAA
1 TACATAACTTACATAA
*
35512549 TACATAAGTTACATAA
1 TACATAACTTACATAA
35512565 T
1 T
35512566 TTAAATATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.33
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:35512776 original size:9 final size:9
Alignment explanation
Indices: 35512764--35512999 Score: 221
Period size: 9 Copynumber: 27.8 Consensus size: 9
35512754 AGACTTCAAC
35512764 AACTTACAT
1 AACTTACAT
35512773 AACTTACAT
1 AACTTACAT
35512782 AACTTACAT
1 AACTTACAT
35512791 AA--TACAT
1 AACTTACAT
*
35512798 AACTTTCAT
1 AACTTACAT
35512807 AACTTACAT
1 AACTTACAT
* *
35512816 TA--TACAC
1 AACTTACAT
35512823 AACTTACAT
1 AACTTACAT
*
35512832 AATTTACAT
1 AACTTACAT
*
35512841 AACTTATAT
1 AACTTACAT
*
35512850 AGCTTACAT
1 AACTTACAT
* *
35512859 -TC-TACAC
1 AACTTACAT
*
35512866 AAGTTACAT
1 AACTTACAT
*
35512875 AACATACAT
1 AACTTACAT
*
35512884 AA--TACAC
1 AACTTACAT
35512891 AACTTACAT
1 AACTTACAT
*
35512900 AACATACAT
1 AACTTACAT
35512909 AA--TACAT
1 AACTTACAT
35512916 AACTTACAT
1 AACTTACAT
*
35512925 AGCTTACAT
1 AACTTACAT
35512934 AA--TACAT
1 AACTTACAT
*
35512941 AAGTTACAT
1 AACTTACAT
*
35512950 AAGTTACAT
1 AACTTACAT
35512959 AACTTACAT
1 AACTTACAT
*
35512968 AACTTATAT
1 AACTTACAT
35512977 AA--TACAT
1 AACTTACAT
35512984 AACTTACAT
1 AACTTACAT
*
35512993 AATTTAC
1 AACTTAC
35513000 TTAATACATA
Statistics
Matches: 186, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
7 42 0.23
8 1 0.01
9 143 0.77
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:35512796 original size:25 final size:26
Alignment explanation
Indices: 35512767--35512996 Score: 196
Period size: 25 Copynumber: 9.1 Consensus size: 26
35512757 CTTCAACAAC
35512767 TTACATAACTTACATAACTTACATAA
1 TTACATAACTTACATAACTTACATAA
* *
35512793 -TACATAACTTTCATAACTTACATTA
1 TTACATAACTTACATAACTTACATAA
* *
35512818 -TACACAACTTACATAATTTACATAA
1 TTACATAACTTACATAACTTACATAA
* * * *
35512843 CTTATATAGCTTACAT-TC-TACACAA
1 -TTACATAACTTACATAACTTACATAA
* *
35512868 GTTACATAACATACATAA--TACACAA
1 -TTACATAACTTACATAACTTACATAA
*
35512893 CTTACATAACATACATAA--TACATAA
1 -TTACATAACTTACATAACTTACATAA
*
35512918 CTTACATAGCTTACATAA--TACATAA
1 -TTACATAACTTACATAACTTACATAA
*
35512943 GTTACATAAGTTACATAACTTACATAA
1 -TTACATAACTTACATAACTTACATAA
*
35512970 CTTATATAA--TACATAACTTACATAA
1 -TTACATAACTTACATAACTTACATAA
35512995 TT
1 TT
35512997 TACTTAATAC
Statistics
Matches: 173, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.01
25 146 0.84
27 25 0.14
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (26 bp):
TTACATAACTTACATAACTTACATAA
Found at i:35512808 original size:34 final size:34
Alignment explanation
Indices: 35512765--35513039 Score: 169
Period size: 34 Copynumber: 8.1 Consensus size: 34
35512755 GACTTCAACA
35512765 ACTTACATAACTTACATAACTTACATAA--TACATA
1 ACTTACATAACTTACATAA--TACATAACTTACATA
* * *
35512799 ACTTTCATAACTTACATTATACACAACTTACATA
1 ACTTACATAACTTACATAATACATAACTTACATA
* * * * *
35512833 ATTTACATAACTTATATAGCTTACAT-TC-TACACA
1 ACTTACATAACTTACATA--ATACATAACTTACATA
* * *
35512867 AGTTACATAACATACATAATACACAACTTACATA
1 ACTTACATAACTTACATAATACATAACTTACATA
* *
35512901 ACATACATAA--TACATAACTTACATAGCTTACATA
1 ACTTACATAACTTACATAA--TACATAACTTACATA
*
35512935 A--TACATAAGTTACATAAGTTACATAACTTACATA
1 ACTTACATAACTTACATAA--TACATAACTTACATA
* * *
35512969 ACTTATATAA--TACATAACTTACATAATTTACTTA
1 ACTTACATAACTTACATAA--TACATAACTTACATA
* * * *
35513003 A--TACATAAATATATATCATATCATAACTAACATA
1 ACTTACATAACT-TACATAATA-CATAACTTACATA
35513037 ACT
1 ACT
35513040 CATTTATACT
Statistics
Matches: 189, Mismatches: 34, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
32 30 0.16
33 3 0.02
34 140 0.74
35 6 0.03
36 10 0.05
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (34 bp):
ACTTACATAACTTACATAATACATAACTTACATA
Found at i:35512840 original size:43 final size:41
Alignment explanation
Indices: 35512777--35512995 Score: 170
Period size: 43 Copynumber: 5.4 Consensus size: 41
35512767 TTACATAACT
*
35512777 TACATAACTTACATAATACATAACTT-TCATAACTTACATTA
1 TACACAACTTACATAATACATAACTTAT-ATAACTTACATTA
* *
35512818 TACACAACTTACATAATTTACATAACTTATATAGCTTACATTC
1 TACACAACTTACATAA--TACATAACTTATATAACTTACATTA
* * *
35512861 TACACAAGTTACATAACATACATAA--TACACAACTTAC---A
1 TACACAACTTACAT-A-ATACATAACTTATATAACTTACATTA
* * *
35512899 TA-AC-A--TACATAATACATAACTTACATAGCTTACATAA
1 TACACAACTTACATAATACATAACTTATATAACTTACATTA
* * * * *
35512936 TACATAAGTTACATAAGTTACATAACTTACATAACTTATATAA
1 TACACAACTTACATAA--TACATAACTTATATAACTTACATTA
*
35512979 TACATAACTTACATAAT
1 TACACAACTTACATAAT
35512996 TTACTTAATA
Statistics
Matches: 148, Mismatches: 14, Indels: 32
0.76 0.07 0.16
Matches are distributed among these distances:
32 8 0.05
33 1 0.01
34 15 0.10
36 1 0.01
37 5 0.03
38 3 0.02
39 1 0.01
41 32 0.22
43 79 0.53
44 2 0.01
45 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (41 bp):
TACACAACTTACATAATACATAACTTATATAACTTACATTA
Found at i:35513039 original size:68 final size:68
Alignment explanation
Indices: 35512764--35513012 Score: 210
Period size: 68 Copynumber: 3.7 Consensus size: 68
35512754 AGACTTCAAC
* * * *
35512764 AACTTACATAACTTACATAACTTACATAA--TACATAACTTTCATAACTTACATTA--TACACAA
1 AACTTACATAA--TACATAACTTACATAACTTACATAA--TACATAAATTACATAAGTTACATAA
35512825 CTTACAT
62 CTTACAT
* * * * * *
35512832 AATTTACATAACTTATATAGCTTACAT-TC-TACACAAGTTACATAACA-TACATAA--TACACA
1 AACTTACATAA--TACATAACTTACATAACTTACATAA--TACATAA-ATTACATAAGTTACATA
35512892 ACTTACAT
61 ACTTACAT
* * *
35512900 AACATACATAATACATAACTTACATAGCTTACATAATACATAAGTTACATAAGTTACATAACTTA
1 AACTTACATAATACATAACTTACATAACTTACATAATACATAAATTACATAAGTTACATAACTTA
35512965 CAT
66 CAT
* * *
35512968 AACTTATATAATACATAACTTACATAATTTACTTAATACATAAAT
1 AACTTACATAATACATAACTTACATAACTTACATAATACATAAAT
35513013 ATATATCATA
Statistics
Matches: 151, Mismatches: 23, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
66 26 0.17
67 1 0.01
68 124 0.82
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (68 bp):
AACTTACATAATACATAACTTACATAACTTACATAATACATAAATTACATAAGTTACATAACTTA
CAT
Found at i:35514967 original size:21 final size:21
Alignment explanation
Indices: 35514937--35514986 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
35514927 GTACAACTTA
*
35514937 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* * *
35514958 AAGTAGAGGCTGCAGTGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
35514979 AAGCAGAG
1 AAGCAGAG
35514987 TAGAGCAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.46, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:35515407 original size:44 final size:43
Alignment explanation
Indices: 35515357--35515450 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 43
35515347 AAGTGCCACT
35515357 AAAGTCACCAAACAATAGC-GACGTTTGTGGGAAAAGCGTCGCTA
1 AAAGTCA-CAAACAATAGCGGA-GTTTGTGGGAAAAGCGTCGCTA
** * * * *
35515401 AAAGTCATGATCTATAGCGGATTTTGTGTGAAAAGCGTCGCTA
1 AAAGTCACAAACAATAGCGGAGTTTGTGGGAAAAGCGTCGCTA
*
35515444 AAGGTCA
1 AAAGTCA
35515451 TGATCTATAG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 33 0.79
44 9 0.21
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (43 bp):
AAAGTCACAAACAATAGCGGAGTTTGTGGGAAAAGCGTCGCTA
Found at i:35515549 original size:43 final size:43
Alignment explanation
Indices: 35515371--35515538 Score: 221
Period size: 43 Copynumber: 3.9 Consensus size: 43
35515361 TCACCAAACA
* * *
35515371 ATAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCT
1 ATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCT
** * *
35515414 ATAGCGGATTTTGTGTGAAAAGCGTCGCTAAAGGTCATGATCT
1 ATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCT
* * *
35515457 ATAGCGGCATTTAT-GAAACAAGCGCCGCTAAAGGTCATGATCT
1 ATAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCATGATCT
*
35515500 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 ATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
35515539 GCCTTTAGCG
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.02
43 103 0.95
44 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (43 bp):
ATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCT
Found at i:35517126 original size:10 final size:10
Alignment explanation
Indices: 35517113--35517175 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 10
35517103 TATATATATG
35517113 ATAATATAAA
1 ATAATATAAA
*
35517123 ATAATATGAAG
1 ATAATAT-AAA
*
35517134 ATAAAAATAAA
1 AT-AATATAAA
35517145 ATAATATATAAA
1 AT-A-ATATAAA
*
35517157 CATAATATAAC
1 -ATAATATAAA
35517168 ATAATATA
1 ATAATATA
35517176 TATAAATAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
10 15 0.34
11 16 0.36
12 11 0.25
13 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (10 bp):
ATAATATAAA
Found at i:35517131 original size:18 final size:18
Alignment explanation
Indices: 35517108--35517164 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
35517098 GATAATATAT
35517108 ATATGATAATATAAAATA
1 ATATGATAATATAAAATA
35517126 ATATGA-AGATA-AAAATA
1 ATATGATA-ATATAAAATA
* *
35517143 AAATAAT-ATATAAACATA
1 ATATGATAATATAAA-ATA
35517161 ATAT
1 ATAT
35517165 AACATAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 3 0.09
17 14 0.44
18 15 0.47
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (18 bp):
ATATGATAATATAAAATA
Found at i:35517166 original size:18 final size:17
Alignment explanation
Indices: 35517116--35517166 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
35517106 ATATATGATA
35517116 ATATAAAATAATATGAAG
1 ATATAAAATAATAT-AAG
* *
35517134 ATA-AAAATAAAATAAT
1 ATATAAAATAATATAAG
35517150 ATATAAACATAATATAA
1 ATATAAA-ATAATATAA
35517167 CATAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 5 0.18
17 12 0.43
18 11 0.39
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (17 bp):
ATATAAAATAATATAAG
Found at i:35517506 original size:21 final size:21
Alignment explanation
Indices: 35517480--35517526 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
35517470 AATAAATATT
*
35517480 TTTAATAAT-TTTCTATAATTA
1 TTTAATAATATTT-AATAATTA
*
35517501 TTTAATAGTATTTAATAATTA
1 TTTAATAATATTTAATAATTA
35517522 TTTAA
1 TTTAA
35517527 AAAAAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAATAATATTTAATAATTA
Found at i:35525242 original size:48 final size:48
Alignment explanation
Indices: 35525186--35525283 Score: 171
Period size: 48 Copynumber: 2.0 Consensus size: 48
35525176 CTCAAATTTG
*
35525186 AATACCATTAGACTACTAACAAAGTTATACTCTAATTCA-ATATTATTC
1 AATACCATTAGACTACTAACAAAGTCATACTCTAATT-AGATATTATTC
35525234 AATACCATTAGACTACTAACAAAGTCATACTCTAATTAGATATTATTC
1 AATACCATTAGACTACTAACAAAGTCATACTCTAATTAGATATTATTC
35525282 AA
1 AA
35525284 ACTTACTCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (48 bp):
AATACCATTAGACTACTAACAAAGTCATACTCTAATTAGATATTATTC
Found at i:35525881 original size:5 final size:5
Alignment explanation
Indices: 35525867--35525981 Score: 205
Period size: 5 Copynumber: 23.2 Consensus size: 5
35525857 CCATGAACAT
* *
35525867 TCATA TCATA CCATA TCATA TCA-A TCGTA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
35525916 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
35525966 TCATA TCATA TCATA T
1 TCATA TCATA TCATA T
35525982 TGTGTCATTG
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
4 3 0.03
5 102 0.97
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (5 bp):
TCATA
Found at i:35532591 original size:37 final size:37
Alignment explanation
Indices: 35532550--35532620 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
35532540 CTTCGCTTGG
35532550 GAAAATTTTGGTATTTTGAATGAATTAGGCCTTACTC
1 GAAAATTTTGGTATTTTGAATGAATTAGGCCTTACTC
35532587 GAAAATTTTGGTATTTTGAATGAATTAGGCCTTA
1 GAAAATTTTGGTATTTTGAATGAATTAGGCCTTA
35532621 GTCTTGTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (37 bp):
GAAAATTTTGGTATTTTGAATGAATTAGGCCTTACTC
Found at i:35536607 original size:26 final size:27
Alignment explanation
Indices: 35536554--35536629 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 27
35536544 ACAAATTTTC
* *
35536554 TCAAAATTTTAC-C-GGGGTAAAATCG
1 TCAAAATTTTACTCAAGGGTAAAATTG
*
35536579 TCAACATTTTA-TCAAGGGTAAAATTG
1 TCAAAATTTTACTCAAGGGTAAAATTG
35536605 TCAAAATTTTACTCAA--GTAAAATTG
1 TCAAAATTTTACTCAAGGGTAAAATTG
35536630 GGATGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
25 20 0.45
26 20 0.45
27 4 0.09
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (27 bp):
TCAAAATTTTACTCAAGGGTAAAATTG
Found at i:35540123 original size:17 final size:17
Alignment explanation
Indices: 35540070--35540126 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
35540060 TAATCACTTT
*
35540070 AATATTAAATT-AATAA
1 AATATTAAATTAAATTA
*
35540086 AATACT--ATTAAGA-TA
1 AATATTAAATTAA-ATTA
*
35540101 AGTATTAAATTAAATTA
1 AATATTAAATTAAATTA
35540118 AATATTAAA
1 AATATTAAA
35540127 CTATTAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
14 3 0.10
15 6 0.19
16 7 0.23
17 15 0.48
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:35545094 original size:20 final size:20
Alignment explanation
Indices: 35545030--35545168 Score: 107
Period size: 20 Copynumber: 6.9 Consensus size: 20
35545020 AAAGTGTCGG
* * *
35545030 ATGCACATTAGTGCCCCTGT
1 ATGCACTTTGGTGCCCCTGA
* * * * *
35545050 ATGTACTTTGATACCCCAGT
1 ATGCACTTTGGTGCCCCTGA
* **
35545070 TTGCACTTTGGTGCCTTTGA
1 ATGCACTTTGGTGCCCCTGA
*
35545090 ATGCACATTTTGTGCCCCTGA
1 ATGCAC-TTTGGTGCCCCTGA
* *
35545111 ATGCACTCTGGTGCCCTTGA
1 ATGCACTTTGGTGCCCCTGA
* * *
35545131 TTGCACATTCGTGCCCCTGA
1 ATGCACTTTGGTGCCCCTGA
*
35545151 ATGCACTCTGGTGCCCCT
1 ATGCACTTTGGTGCCCCT
35545169 AATTGCACAC
Statistics
Matches: 88, Mismatches: 30, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
20 71 0.81
21 17 0.19
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGCACTTTGGTGCCCCTGA
Found at i:35545156 original size:40 final size:41
Alignment explanation
Indices: 35545071--35545177 Score: 153
Period size: 40 Copynumber: 2.6 Consensus size: 41
35545061 TACCCCAGTT
* * * *
35545071 TGCACTTTGGTGCCTTTGAATGCACATTTTGTGCCCCTGAA
1 TGCACTCTGGTGCCCTTGATTGCACATTTCGTGCCCCTGAA
35545112 TGCACTCTGGTGCCCTTGATTGCACA-TTCGTGCCCCTGAA
1 TGCACTCTGGTGCCCTTGATTGCACATTTCGTGCCCCTGAA
* *
35545152 TGCACTCTGGTGCCCCTAATTGCACA
1 TGCACTCTGGTGCCCTTGATTGCACA
35545178 CTTATACCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 37 0.62
41 23 0.38
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (41 bp):
TGCACTCTGGTGCCCTTGATTGCACATTTCGTGCCCCTGAA
Found at i:35546141 original size:54 final size:53
Alignment explanation
Indices: 35546072--35546186 Score: 176
Period size: 54 Copynumber: 2.2 Consensus size: 53
35546062 GAGACATGAC
*
35546072 CGTGTGTCTTAAGTTAGTGAGTTACACGGTCTATAACACGGGCTGAGACACGG
1 CGTGTGTCTCAAGTTAGTGAGTTACACGGTCTATAACACGGGCTGAGACACGG
* * * *
35546125 TCGTGTGTCTCAAGTTAGTGAGTTACATGGTCTATGACATGGGCTGGGACACGG
1 -CGTGTGTCTCAAGTTAGTGAGTTACACGGTCTATAACACGGGCTGAGACACGG
35546179 CGTGTGTC
1 CGTGTGTC
35546187 CCTACTTCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 8 0.14
54 48 0.86
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (53 bp):
CGTGTGTCTCAAGTTAGTGAGTTACACGGTCTATAACACGGGCTGAGACACGG
Found at i:35554822 original size:12 final size:11
Alignment explanation
Indices: 35554801--35554852 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
35554791 ATGCAAAATT
*
35554801 AAGAGAAAAAG
1 AAGAAAAAAAG
35554812 AAGAAAGAAAAG
1 AAGAAA-AAAAG
*
35554824 AAAGAAAAAAATA
1 -AAGAAAAAAA-G
*
35554837 AAGAAAAAAGG
1 AAGAAAAAAAG
35554848 AAGAA
1 AAGAA
35554853 GAACACACGG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 10 0.29
12 18 0.53
13 6 0.18
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:35556885 original size:16 final size:16
Alignment explanation
Indices: 35556864--35556903 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
35556854 GTCTCTCGTC
35556864 TTTTATTTACATATAT
1 TTTTATTTACATATAT
* * *
35556880 TTTTATTTCCTTTTAT
1 TTTTATTTACATATAT
35556896 TTTTATTT
1 TTTTATTT
35556904 TATTTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTACATATAT
Found at i:35557520 original size:11 final size:11
Alignment explanation
Indices: 35557461--35557522 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
35557451 CATTTATCAG
*
35557461 TTATTTTATTA
1 TTATATTATTA
35557472 TTAT-TT-TTA
1 TTATATTATTA
* *
35557481 TTCTATTATCA
1 TTATATTATTA
**
35557492 TTATACCATTA
1 TTATATTATTA
35557503 TTA-ATTATTA
1 TTATATTATTA
35557513 TTATATTATT
1 TTATATTATT
35557523 TACTATCATA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 6 0.15
10 12 0.30
11 22 0.55
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATTATTA
Found at i:35557609 original size:19 final size:20
Alignment explanation
Indices: 35557571--35557610 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
35557561 TTATATGTAA
*
35557571 TATATATGTATATTTTATTTT
1 TATATATGTATA-TTAATTTT
35557592 TATATATGTATA-TAATTTT
1 TATATATGTATATTAATTTT
35557611 AAACCTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TATATATGTATATTAATTTT
Found at i:35557734 original size:28 final size:28
Alignment explanation
Indices: 35557679--35557735 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
35557669 TATTTTCTTA
* *
35557679 ACTTCTATATATTTTATATTATATATAT
1 ACTTATATATATTTTATATTATAAATAT
* * *
35557707 ACTTATATATTTTTTATTTTGTAAATAT
1 ACTTATATATATTTTATATTATAAATAT
35557735 A
1 A
35557736 TACATATCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (28 bp):
ACTTATATATATTTTATATTATAAATAT
Found at i:35559320 original size:16 final size:16
Alignment explanation
Indices: 35559299--35559332 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
35559289 TGTGTTTCAC
*
35559299 TTTGACTGCATGGCAT
1 TTTGACTGCATGGAAT
35559315 TTTGACTGCATGGAAT
1 TTTGACTGCATGGAAT
35559331 TT
1 TT
35559333 CATTATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGACTGCATGGAAT
Found at i:35564044 original size:44 final size:44
Alignment explanation
Indices: 35563887--35564932 Score: 714
Period size: 44 Copynumber: 23.6 Consensus size: 44
35563877 TATTGGTAGC
* * *** * *
35563887 GAAGTGGATCAAAGATAGTAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG-CGT
* ** * *
35563932 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCTGTACTGGCAGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGC-GT
* * * *
35563977 GAAGTATATCAAATATAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * *
35564021 GAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTAGT-G-GT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTT--CAT-GTATTGGCGT
* * * * * * *
35564066 GAACTAGATCAAAGATAATGGATCTTGACTTCATGTATTGACAT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * * *** *
35564110 GAAGTAGATCAAAGATAGCAGATCTTTTCTTCCCATATTGGTGGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG-CGT
* *** * *
35564155 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG-CGT
* * * *
35564200 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * * * * *
35564244 GAAATAGAT-AAGAGATAGTGGATCTTGTCTTTATGTATTGACAT
1 GAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGGCGT
* *** * *
35564288 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG-CGT
* * * *
35564333 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * * *
35564377 GAAGTAGATC-AGATATAGT-GAATCTTGTCTTCAAGTATTGACAT
1 GAAGTAGATCGA-AGATAGTAG-ATCTTGTCTTCATGTATTGGCGT
* * * * *
35564421 GAAGTAGATTGAAGATAGCAGACCTTGTCTTCCCATACTAGT-G-GT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTT--CAT-GTATTGGCGT
* * * * *
35564466 GAAGTAGATCGAAGATAATGGATCTTGTCTTCTTGTATTGACAT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * * * *
35564510 GAAGTAGAT-TAGAGATAGTGGATCTTGTCTTTATGTATTGACAT
1 GAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * * * *
35564554 GAAGTAGATCGAAGATAGCAGATCTTG-CTTCTTATACTGGTGGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG-CGT
* * * *
35564598 G-AGTAGATCGAAGATAATAGATGTTGTCTTCATGTATTGACAT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * * *
35564641 GAAGTAGATC-ATAGATAGTGGATATTGTCTTCATGTATTGACAT
1 GAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGGCGT
* *** * *
35564685 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG-CGT
* * * *
35564730 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * * * * * *
35564774 AAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATACTGGTGGT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG-CGT
* * * * * *
35564819 GAAGAAGATCAAAGATAATGGATCTTGTCTTCATGTATTGACAT
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* ** * * *
35564863 GAAGTATATC-AGAGATAACAGATCATGTCTTCCTGTACTGGCAGT
1 GAAGTAGATCGA-AGATAGTAGATCTTGTCTTCATGTATTGGC-GT
* *
35564908 GAAGTAGATC-AAAATAGCAGATCTT
1 GAAGTAGATCGAAGATAGTAGATCTT
35564933 TAAGTTGTAT
Statistics
Matches: 791, Mismatches: 180, Indels: 61
0.77 0.17 0.06
Matches are distributed among these distances:
42 6 0.01
43 43 0.05
44 406 0.51
45 324 0.41
46 6 0.01
47 6 0.01
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
Found at i:35564053 original size:89 final size:88
Alignment explanation
Indices: 35563887--35564917 Score: 770
Period size: 89 Copynumber: 11.6 Consensus size: 88
35563877 TATTGGTAGC
* * *** * * * *
35563887 GAAGTGGATCAAAGATAGTAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGATAACA
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAATA
* * *
35563952 GATCTTGTCTTCCTGTACTGGCAGT
65 GATCTTGTCTTCATGTATTGACA-T
* *
35563977 GAAGTATATCAAATATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAG
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAG
* * *
35564042 ATCTTGTCTTCCCATACTAGTG--GT
66 ATCTTGTCTT--CAT-GTATTGACAT
* *** * * * * **
35564066 GAACTAGATCAAAGATAATGGATCTTGACTTCATGTATTGACATGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAG
* *** ***
35564131 ATCTTTTCTTCCCATATTGGTGGT
66 ATCTTGTCTTCATGTATT-GACAT
* *** * * *
35564155 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAATA
35564220 GATCTTGTCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* ** * * * **
35564244 GAAATAGAT-AAGAGATAGTGGATCTTGTCTTTATGTATTGACATGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCAA-AGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATA
*** * ***
35564308 GATCTTGTCTTCCCATACTGGTGGT
65 GATCTTGTCTTCATGTA-TTGACAT
* *** * *
35564333 GAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC--AGAT-ATAG
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATA-
*
35564395 TGAATCTTGTCTTCAAGTATTGACAT
65 -G-ATCTTGTCTTCATGTATTGACAT
** * * *
35564421 GAAGTAGATTGAAGATAGCAGACCTTGTCTTCCCATACTAGT-G-GTGAAGTAGATCGAAGATAA
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCGTGAAGTAGATCGAAGATAA
* *
35564484 TGGATCTTGTCTTCTTGTATTGACAT
63 TAGATCTTGTCTTCATGTATTGACAT
* * ** * * * **
35564510 GAAGTAGATTAGAGATAGTGGATCTTGTCTTTATGTATTGACATGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAG
* * * ***
35564575 ATCTTG-CTTCTTATACTGGTGGT
66 ATCTTGTCTTCATGTA-TTGACAT
* ** * * * * *
35564598 G-AGTAGATCGAAGATAATAGATGTTGTCTTCATGTATTGACATGAAGTAGATC-ATAGATAGTG
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA-AGATAATA
*
35564661 GATATTGTCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* *** * * *
35564685 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAATA
35564750 GATCTTGTCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* * * * * * * *
35564774 AAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGAAGATCAAAGATAATG
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAATA
35564839 GATCTTGTCTTCATGTATTGACAT
65 GATCTTGTCTTCATGTATTGACAT
* * * * * *
35564863 GAAGTATATCAGAGATAACAGATCATGTCTTCCTGTACTGGCAGTGAAGTAGATC
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATC
35564918 AAAATAGCAG
Statistics
Matches: 751, Mismatches: 162, Indels: 57
0.77 0.17 0.06
Matches are distributed among these distances:
86 8 0.01
87 77 0.10
88 130 0.17
89 450 0.60
90 71 0.09
91 9 0.01
92 6 0.01
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (88 bp):
GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAATAG
ATCTTGTCTTCATGTATTGACAT
Found at i:35564343 original size:133 final size:132
Alignment explanation
Indices: 35563887--35564805 Score: 1284
Period size: 133 Copynumber: 6.9 Consensus size: 132
35563877 TATTGGTAGC
* * * * **
35563887 GAAGTGGATCAAAGATAGTAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGATAACA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
* * * * * **
35563952 GATCTTGTCTTCCTGTACTGGCAGTGAAGTATATCAAATATAGCAGATCTTGTCTTCATGTATTG
66 GATCTTGTCTTCATGTATTGACA-TGAAGTAGAT-AAAGATAGTGGATCTTGTCTTCATGTATTG
* *
35564017 GCGT
129 ACAT
** * * *
35564021 GAAGTAGATCGAAGATAATAGATCTTGTCTTCCCATACTAGTGGTGAACTAGATCAAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
* ** * ***
35564086 GATCTTGACTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTTTCTTCCCATATTGG
66 GATCTTGTCTTCATGTATTGACATGAAGTAGAT-AAAGATAGTGGATCTTGTCTTCATGTATT-G
***
35564151 TGGT
129 ACAT
35564155 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
* *
35564220 GATCTTGTCTTCATGTATTGACATGAAATAGATAAGAGATAGTGGATCTTGTCTTTATGTATTGA
66 GATCTTGTCTTCATGTATTGACATGAAGTAGATAA-AGATAGTGGATCTTGTCTTCATGTATTGA
35564285 CAT
130 CAT
35564288 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
* * * *
35564353 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGATATAGTGAATCTTGTCTTCAAGTATTGA
66 GATCTTGTCTTCATGTATTGACATGAAGTAGAT-AAAGATAGTGGATCTTGTCTTCATGTATTGA
35564418 CAT
130 CAT
* * *
35564421 GAAGTAGATTGAAGATAGCAGACCTTGTCTTCCCATACTAGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
* * *
35564486 GATCTTGTCTTCTTGTATTGACATGAAGTAGATTAGAGATAGTGGATCTTGTCTTTATGTATTGA
66 GATCTTGTCTTCATGTATTGACATGAAGTAGA-TAAAGATAGTGGATCTTGTCTTCATGTATTGA
35564551 CAT
130 CAT
** *
35564554 GAAGTAGATCGAAGATAGCAGATCTTG-CTTCTTATACTGGTGGTG-AGTAGATCGAAGATAATA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
* * *
35564617 GATGTTGTCTTCATGTATTGACATGAAGTAGATCATAGATAGTGGATATTGTCTTCATGTATTGA
66 GATCTTGTCTTCATGTATTGACATGAAGTAGAT-AAAGATAGTGGATCTTGTCTTCATGTATTGA
35564682 CAT
130 CAT
35564685 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
* **
35564750 GATCTTGTCTTCATGTATTGACATAAAGTAGATCAAAGATAGCAGATCTTGTCTTC
66 GATCTTGTCTTCATGTATTGACATGAAGTAGAT-AAAGATAGTGGATCTTGTCTTC
35564806 CTATACTGGT
Statistics
Matches: 708, Mismatches: 70, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
130 1 0.00
131 105 0.15
132 31 0.04
133 378 0.53
134 193 0.27
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG
GATCTTGTCTTCATGTATTGACATGAAGTAGATAAAGATAGTGGATCTTGTCTTCATGTATTGAC
AT
Found at i:35566442 original size:19 final size:20
Alignment explanation
Indices: 35566404--35566443 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
35566394 TTATATGTAA
*
35566404 TATATATGTATATTTTATTTT
1 TATATATGTATA-TTAATTTT
35566425 TATATATGTATA-TAATTTT
1 TATATATGTATATTAATTTT
35566444 AAGCCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TATATATGTATATTAATTTT
Found at i:35569230 original size:18 final size:18
Alignment explanation
Indices: 35569199--35569255 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
35569189 ATTTACTTTC
**
35569199 ATTTATTAAATTAATATT
1 ATTTATTACCTTAATATT
35569217 ATTTATTACCTTAA-ATAT
1 ATTTATTACCTTAATAT-T
35569235 ATTTTATTCACC-TAATATT
1 A-TTTATT-ACCTTAATATT
35569254 AT
1 AT
35569256 GATTTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 2 0.06
18 15 0.45
19 11 0.33
20 5 0.15
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTATTACCTTAATATT
Found at i:35570242 original size:19 final size:18
Alignment explanation
Indices: 35570207--35570260 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
35570197 TTAATTTTTT
35570207 AAAATAAAAAATATTTAA
1 AAAATAAAAAATATTTAA
* *
35570225 AAAATTAAAATTATTTTAA
1 AAAATAAAAAATA-TTTAA
* *
35570244 ACATATAATAAATATTT
1 A-AAATAAAAAATATTT
35570261 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 11 0.39
19 9 0.32
20 8 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATAAAAAATATTTAA
Found at i:35581986 original size:25 final size:23
Alignment explanation
Indices: 35581942--35582028 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 23
35581932 GATAAACTTA
35581942 AACGGGAAGCT-CAAGTGAGCCATGT
1 AACGGGAAGCTCCAA--GAGCCAT-T
35581967 AACGGGAAGCTCCGAAGAGCCATT
1 AACGGGAAGCTCC-AAGAGCCATT
* * *
35581991 AATGTGAAGCTCACAAAGAGCCTTT
1 AACGGGAAGCTC-C-AAGAGCCATT
35582016 AATCGGGAAGCTC
1 AA-CGGGAAGCTC
35582029 ATAAAGAACC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 11 0.21
25 30 0.58
26 9 0.17
27 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (23 bp):
AACGGGAAGCTCCAAGAGCCATT
Found at i:35585170 original size:16 final size:16
Alignment explanation
Indices: 35585149--35585180 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35585139 AATTAATTTA
*
35585149 AATTAATAAATTTTCT
1 AATTAAAAAATTTTCT
35585165 AATTAAAAAATTTTCT
1 AATTAAAAAATTTTCT
35585181 CAATCGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAAAAAATTTTCT
Found at i:35587680 original size:15 final size:15
Alignment explanation
Indices: 35587660--35587689 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35587650 GTCTGACTAT
35587660 TCTGATATATGTATA
1 TCTGATATATGTATA
*
35587675 TCTGATATTTGTATA
1 TCTGATATATGTATA
35587690 CAAGCATGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
TCTGATATATGTATA
Found at i:35595643 original size:33 final size:34
Alignment explanation
Indices: 35595563--35595658 Score: 104
Period size: 33 Copynumber: 2.8 Consensus size: 34
35595553 ATAGAATTTT
* * *
35595563 TAGTGGCATGCTTTACATGTGAATTAGAATCAAAA
1 TAGTGGCATGCTTAACATGCGAATCAGAATC-AAA
* * * *
35595598 CAGTGGCGTGCTTAACATGCGAATCATATTC-AA
1 TAGTGGCATGCTTAACATGCGAATCAGAATCAAA
*
35595631 TAGTGGCATGCTTAACATACGAATCAGA
1 TAGTGGCATGCTTAACATGCGAATCAGA
35595659 TTATCAATAG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
33 26 0.52
35 24 0.48
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (34 bp):
TAGTGGCATGCTTAACATGCGAATCAGAATCAAA
Found at i:35604424 original size:29 final size:29
Alignment explanation
Indices: 35604360--35604415 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
35604350 TTTAGTAATT
* *
35604360 CAACTATGAAAGGTTATAAAATGGTCATC
1 CAACTATAAAAAGTTATAAAATGGTCATC
*
35604389 CAACTATAAAAAGTTATAAAATTGTCA
1 CAACTATAAAAAGTTATAAAATGGTCA
35604416 CTTAACTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (29 bp):
CAACTATAAAAAGTTATAAAATGGTCATC
Found at i:35605516 original size:35 final size:35
Alignment explanation
Indices: 35605459--35605537 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
35605449 TAATGATATT
* * *
35605459 AAAAATAAAAATATAGAAAATAAT-TGGATTTATAA
1 AAAAATATAAATATAGAAAATAATAT-AAATTATAA
***
35605494 AAAAATATAAATATATTTAATAATATAAATTATAA
1 AAAAATATAAATATAGAAAATAATATAAATTATAA
35605529 AAAAATATA
1 AAAAATATA
35605538 TTGAAATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
35 36 0.97
36 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (35 bp):
AAAAATATAAATATAGAAAATAATATAAATTATAA
Found at i:35607204 original size:22 final size:23
Alignment explanation
Indices: 35607176--35607220 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
35607166 TGCACCATAG
35607176 TGAATCT-GATCAGT-AGCTTGCA
1 TGAATCTAGAT-AGTAAGCTTGCA
35607198 TGAATCTAGATAGTAAGCTTGCA
1 TGAATCTAGATAGTAAGCTTGCA
35607221 ACATACACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (23 bp):
TGAATCTAGATAGTAAGCTTGCA
Found at i:35621979 original size:14 final size:14
Alignment explanation
Indices: 35621960--35622002 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
35621950 CAATGTTCCA
35621960 TTTCATATATCTAT
1 TTTCATATATCTAT
* *
35621974 TTTCATATAACCA-
1 TTTCATATATCTAT
*
35621987 TTTCATTTATCTAT
1 TTTCATATATCTAT
35622001 TT
1 TT
35622003 CCAATAACCA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTCATATATCTAT
Found at i:35621987 original size:27 final size:27
Alignment explanation
Indices: 35621957--35622037 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
35621947 ACCCAATGTT
35621957 CCATTTCATATATCTATTTTCATATAA
1 CCATTTCATATATCTATTTTCATATAA
* *
35621984 CCATTTCATTTATCTATTTCCA-ATAA
1 CCATTTCATATATCTATTTTCATATAA
** *
35622010 CCAAATCATATATCTGTTTTCATATAA
1 CCATTTCATATATCTATTTTCATATAA
35622037 C
1 C
35622038 TGATTCATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 21 0.46
27 25 0.54
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.44
Consensus pattern (27 bp):
CCATTTCATATATCTATTTTCATATAA
Found at i:35621990 original size:13 final size:13
Alignment explanation
Indices: 35621957--35622058 Score: 55
Period size: 13 Copynumber: 7.7 Consensus size: 13
35621947 ACCCAATGTT
*
35621957 CCATTTCATATAT
1 CCATTTCATATAA
*
35621970 CTATTTTCATATAA
1 CCA-TTTCATATAA
* *
35621984 CCATTTCATTTAT
1 CCATTTCATATAA
*
35621997 CTATTTCCA-ATAA
1 CCATTT-CATATAA
** *
35622010 CCAAATCATATAT
1 CCATTTCATATAA
**
35622023 CTGTTTTCATATAA
1 C-CATTTCATATAA
*
35622037 CTGA-TTCATATAA
1 C-CATTTCATATAA
35622050 CCATTTCAT
1 CCATTTCAT
35622059 TTCTAAGTTT
Statistics
Matches: 65, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
12 3 0.05
13 39 0.60
14 23 0.35
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:35622018 original size:26 final size:27
Alignment explanation
Indices: 35621962--35622037 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 27
35621952 ATGTTCCATT
* **
35621962 TCATATATCTATTTTCATATAACCATT
1 TCATATATCTATTTCCATATAACCAAA
*
35621989 TCATTTATCTATTTCCA-ATAACCAAA
1 TCATATATCTATTTCCATATAACCAAA
* *
35622015 TCATATATCTGTTTTCATATAAC
1 TCATATATCTATTTCCATATAAC
35622038 TGATTCATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.34, C:0.20, G:0.01, T:0.45
Consensus pattern (27 bp):
TCATATATCTATTTCCATATAACCAAA
Found at i:35622045 original size:27 final size:26
Alignment explanation
Indices: 35621961--35622048 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
35621951 AATGTTCCAT
*
35621961 TTCATATATCTATTTTCATATAACCAT
1 TTCATATATCTATTTTCATATAA-CAA
* *
35621988 TTCATTTATCTATTTCCA-ATAACCAA
1 TTCATATATCTATTTTCATATAA-CAA
* * *
35622014 ATCATATATCTGTTTTCATATAACTGA
1 TTCATATATCTATTTTCATATAAC-AA
35622041 TTCATATA
1 TTCATATA
35622049 ACCATTTCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
26 22 0.44
27 28 0.56
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.45
Consensus pattern (26 bp):
TTCATATATCTATTTTCATATAACAA
Found at i:35626936 original size:28 final size:28
Alignment explanation
Indices: 35626896--35626952 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
35626886 TCTCCCTTTT
35626896 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
35626924 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
35626952 T
1 T
35626953 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:35635040 original size:28 final size:28
Alignment explanation
Indices: 35635000--35635056 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
35634990 CTCCCTTTTT
35635000 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
35635028 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
35635056 T
1 T
35635057 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:35641983 original size:19 final size:18
Alignment explanation
Indices: 35641955--35641992 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
35641945 TGTAATATTT
35641955 ATTTTTAATAGT-GTTTAA
1 ATTTTTAATA-TAGTTTAA
35641973 ATTTATTAATATAGTTTAA
1 ATTT-TTAATATAGTTTAA
35641992 A
1 A
35641993 ATGTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
ATTTTTAATATAGTTTAA
Found at i:35642358 original size:22 final size:22
Alignment explanation
Indices: 35642309--35642375 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 22
35642299 AATATATGTA
*
35642309 TATACTTATAAAATGTATTATAATT
1 TATATTTATAAAAT-T-TTAT-ATT
35642334 TATAATTTATAAAATTTTAT-TT
1 TAT-ATTTATAAAATTTTATATT
*
35642356 TATGTTT-TAAAATTTT-TATT
1 TATATTTATAAAATTTTATATT
35642376 CATTTCGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.29
21 3 0.08
22 5 0.13
24 4 0.11
25 4 0.11
26 10 0.26
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (22 bp):
TATATTTATAAAATTTTATATT
Found at i:35655043 original size:41 final size:41
Alignment explanation
Indices: 35654998--35655102 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
35654988 AAATAAAGGA
* *
35654998 TCTTATCTATCTGA-AGTTATAGTAGAGTAGATTGCATCAGG
1 TCTTATCTACCTGAGA-TTACAGTAGAGTAGATTGCATCAGG
* *
35655039 TCTTATCTCCCTGAGATTACAGTGGAGTAGATTGCATCAGG
1 TCTTATCTACCTGAGATTACAGTAGAGTAGATTGCATCAGG
*
35655080 TCTTATCTCCCTGAGATTACAGT
1 TCTTATCTACCTGAGATTACAGT
35655103 GGAATAGACC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 58 0.98
42 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (41 bp):
TCTTATCTACCTGAGATTACAGTAGAGTAGATTGCATCAGG
Found at i:35655297 original size:219 final size:219
Alignment explanation
Indices: 35655039--35655575 Score: 896
Period size: 219 Copynumber: 2.5 Consensus size: 219
35655029 TTGCATCAGG
* * * *
35655039 TCTTATCTCCCTG-AGATTACAGTGGAGTAGATTGCATCAGGTCTTATCTCCCTGAGATTACAGT
1 TCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGATTACAGT
35655103 GGAATAGACCGAAGAATTCCAGATCTTATCTCCCTAAGAAATAGTGGAGCTAATCGAAAATGGTG
65 GGAATAGACCGAAGAATTCCAGATCTTATCTCCCTAAGAAATAGTGGAGCTAATCGAAAATGGTG
* *
35655168 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCAATTTCCTTGAGATTG
130 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCAATTTCCCTGAGATTA
35655233 CAGTGGAACAGATTAAAATAAAGGA
195 CAGTGGAACAGATTAAAATAAAGGA
*
35655258 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGATTATAGTG
1 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGATTACAGTG
* ** * *
35655323 GAATAGACCGAAAAATTCCAGATCTTATCTTTCTAAGTAATAGTGGAGTTAATCGAAAATGGTGA
66 GAATAGACCGAAGAATTCCAGATCTTATCTCCCTAAGAAATAGTGGAGCTAATCGAAAATGGTGA
*
35655388 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
131 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCAATTTCCCTGAGATTAC
*
35655453 AGTGGAACGGATTAAAATAAAGGA
196 AGTGGAACAGATTAAAATAAAGGA
* *
35655477 TCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGATTGCAGTG
1 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGATTACAGTG
**
35655542 GAATAGACCGAAGAATTTGAGATCTTATCTCCCT
66 GAATAGACCGAAGAATTCCAGATCTTATCTCCCT
35655576 GAGATTACAG
Statistics
Matches: 295, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
219 293 0.99
220 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (219 bp):
TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGATTACAGTG
GAATAGACCGAAGAATTCCAGATCTTATCTCCCTAAGAAATAGTGGAGCTAATCGAAAATGGTGA
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCAATTTCCCTGAGATTAC
AGTGGAACAGATTAAAATAAAGGA
Found at i:35655595 original size:175 final size:175
Alignment explanation
Indices: 35655388--35655733 Score: 586
Period size: 175 Copynumber: 2.0 Consensus size: 175
35655378 AAAATGGTGA
35655388 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* * *
35655453 AGTGGAACGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGT-AGATCGCATCAG
66 AGTGGAACGAATTAAAATAAAGAATCCTATCCCTCTGAAGTTACAGTAGA-TAAGATCGCATCAG
** *
35655517 GTCTTATCTCCTTGAGATTGCAGTGGAATAGACCGAAGAATTTGAG
130 GTCTTATCTCCCAGAGATTACAGTGGAATAGACCGAAGAATTTGAG
*
35655563 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* * *
35655628 AGTGGAACGAATTAAAATAAAGAATCTTATCCCTCTGAAGTTGCAGTAGATAAGATTGCATCAGG
66 AGTGGAACGAATTAAAATAAAGAATCCTATCCCTCTGAAGTTACAGTAGATAAGATCGCATCAGG
35655693 TCTTATCTCCCAGAGATTACAGTGGAATAGACCGAAGAATT
131 TCTTATCTCCCAGAGATTACAGTGGAATAGACCGAAGAATT
35655734 CCATATCATA
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
174 1 0.01
175 159 0.99
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
AGTGGAACGAATTAAAATAAAGAATCCTATCCCTCTGAAGTTACAGTAGATAAGATCGCATCAGG
TCTTATCTCCCAGAGATTACAGTGGAATAGACCGAAGAATTTGAG
Found at i:35655714 original size:523 final size:520
Alignment explanation
Indices: 35654645--35655634 Score: 1165
Period size: 523 Copynumber: 1.9 Consensus size: 520
35654635 GAAGATGGTG
*
35654645 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAACCCAGTAATCCTATTTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAACCCAGTAATCCAATTTCCCTGAGATTA
* * * *
35654710 TAGTGGAGCGGATTAAAATAAATGATTATATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAACAGATTAAAATAAAGGATTATATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
* * *
35654775 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAGTTCCAGATCGCGTCTCCTTAAGCAA
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAAAATTCCAGATCGCATCTCCTTAAGCAA
*
35654840 TAGTGGAGCAGATCAAAGACGGTGAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAATCC
196 TAGTGGAGCAGATCAAAGACGGTGAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCC
* * ** *
35654905 AGTAATCCTATCTCACTGAGATTACAGCGGAGCAGACTGAAGCCAGTAATCCTATTTCCCTGAGA
261 AGTAATCCTATCTCACTGAGATTACAGCGGAACAGACTAAAGAAAGTAATCCTATCTCCCTGAGA
* * * ** *
35654970 TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTATCTGAAGTTATAGTAGAGTAGATTGCAT
326 TTACAGTAGAGCAGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAGAATAGAAAGAAT
* * * * * * *
35655035 CAGGTCTTATCTCCCTGAGATTACAGTGGAGTAGATTGCATCAGGTCTTATCTCCCTGAGATTAC
391 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCAGATCCTATCTCCCTGAGATTAC
* ** *
35655100 AGTGGAATAGACCGAAGAATTCCAGATCTTATCTCCCTAAGAAATAGTGGAGCTAATCGAAAATG
456 AGTGGAATAGAACGAAGAATTAAAGATCTTATCTCCCT-AGAAATA-TGCAGCTAATC-AAAATG
* *
35655165 GTG
518 ATC
* * *
35655168 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCAATTTCCTTGAGATTG
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAACCCAGTAATCCAATTTCCCTGAGATTA
35655233 CAGTGGAACAGATTAAAATAAAGGATCT-TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 CAGTGGAACAGATTAAAATAAAGGAT-TATATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
* * ** * *
35655297 GGTCTTATCTCCTTGAGATTATAGTGGAATAGACCGAAAAATTCCAGATCTTATCT-TTCTAAGT
130 GGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAAAATTCCAGATCGCATCTCCT-TAAGC
* * *
35655361 AATAGTGGAGTTA-ATCGAAA-ATGGTGAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
194 AATAGTGGAG-CAGATC-AAAGACGGTGAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGA
* * * * * * * *
35655424 AGCCAGTAATCCTATTTCCCTGAGATTACAGTGGAACGGATTAAAATAAAG-GATCCTATCTCTC
257 AGCCAGTAATCCTATCTCACTGAGATTACAGCGGAACAGACT-AAAGAAAGTAATCCTATCTCCC
* *** * * * *
35655488 TGA-AGTTACAGTAGAGTAGA-TCGCAT-CAGG-TCTTATCT-CCTTG-AGATTGCAGTGGAATA
321 TGAGA-TTACAGTAGAGCAGATTAAAATAAAGGATCTTATCTATC-TGAAG-TTACAGTAGAATA
*
35655547 GACCGAAGAATTTGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
383 GA---AAGAA--TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-AG--ATCCT
*
35655612 ATTTCCCTGAGATTACAGTGGAA
440 ATCTCCCTGAGATTACAGTGGAA
35655635 CGAATTAAAA
Statistics
Matches: 394, Mismatches: 57, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
519 3 0.01
520 21 0.05
521 3 0.01
522 5 0.01
523 289 0.73
524 9 0.02
525 37 0.09
526 2 0.01
528 25 0.06
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (520 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAACCCAGTAATCCAATTTCCCTGAGATTA
CAGTGGAACAGATTAAAATAAAGGATTATATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAAAATTCCAGATCGCATCTCCTTAAGCAA
TAGTGGAGCAGATCAAAGACGGTGAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCC
AGTAATCCTATCTCACTGAGATTACAGCGGAACAGACTAAAGAAAGTAATCCTATCTCCCTGAGA
TTACAGTAGAGCAGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAGAATAGAAAGAAT
CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCAGATCCTATCTCCCTGAGATTAC
AGTGGAATAGAACGAAGAATTAAAGATCTTATCTCCCTAGAAATATGCAGCTAATCAAAATGATC
Found at i:35655718 original size:85 final size:84
Alignment explanation
Indices: 35655440--35655719 Score: 233
Period size: 85 Copynumber: 3.2 Consensus size: 84
35655430 TAATCCTATT
* * * *
35655440 TCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGT
1 TCCCTGAGATTACAGTGGAACGAATTAAAATAAAGAATCTTATCCCTCTGAAGTTACAGTAGA-T
*
35655505 AGATCGCATCAGGTCTTATC
65 AGATTGCATCAGGTCTTATC
* * * *** ** *
35655525 TCCTTGAGATTGCAGTGGAATAGACCGAAGAAT-TTGAGATCTTATCTCC-CTG-AGATTACAGC
1 TCCCTGAGATTACAGTGGAA-CGAATTAA-AATAAAGA-ATCTTATC-CCTCTGAAG-TTACAGT
* * * * * * *
35655587 GGAGCAGATTGAAGCTAGTAATCCTATT
61 AGA-TAGATTGCATC-AG--GTCTTATC
*
35655615 TCCCTGAGATTACAGTGGAACGAATTAAAATAAAGAATCTTATCCCTCTGAAGTTGCAGTAGATA
1 TCCCTGAGATTACAGTGGAACGAATTAAAATAAAGAATCTTATCCCTCTGAAGTTACAGTAGAT-
35655680 AGATTGCATCAGGTCTTATC
65 AGATTGCATCAGGTCTTATC
*
35655700 TCCCAGAGATTACAGTGGAA
1 TCCCTGAGATTACAGTGGAA
35655720 TAGACCGAAG
Statistics
Matches: 144, Mismatches: 39, Indels: 24
0.70 0.19 0.12
Matches are distributed among these distances:
85 42 0.29
86 6 0.04
87 33 0.23
88 32 0.22
89 8 0.06
90 23 0.16
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (84 bp):
TCCCTGAGATTACAGTGGAACGAATTAAAATAAAGAATCTTATCCCTCTGAAGTTACAGTAGATA
GATTGCATCAGGTCTTATC
Done.